Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 65 of 410
Found at i:18098719 original size:17 final size:17
Alignment explanation
Indices: 18098699--18098731 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18098689 ATTAAAAATC
*
18098699 ATATTTTTACATTTAAT
1 ATATTTTTAAATTTAAT
18098716 ATATTTTTAAATTTAA
1 ATATTTTTAAATTTAA
18098732 AAATGCATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTTAAATTTAAT
Found at i:18112848 original size:2 final size:2
Alignment explanation
Indices: 18112830--18112883 Score: 90
Period size: 2 Copynumber: 26.5 Consensus size: 2
18112820 AATTGTTAAC
*
18112830 AT AT CAT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18112873 AT AT AT AT AT A
1 AT AT AT AT AT A
18112884 AAAGAAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18113602 original size:90 final size:88
Alignment explanation
Indices: 18113471--18113644 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 88
18113461 AATTCTTCTC
* * * * *
18113471 CTTTTTTTTTCACTTAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAAAGTCCTCAAACTTC
1 CTTTTCTTTTCACTTAATTGAGTACTTGAACTTTAAAAATGCAT-AAAAAAA-TACTAAAAATTC
18113536 TTCAAAAAAAGCAATTAAGCCTCTG
64 TTCAAAAAAAGCAATTAAGCCTCTG
* * *
18113561 CTTTTCTTTTCACTTAATTGGGTACTTGAACTTTAAAAATGCATAAAAAGATACTAAAAATTTTT
1 CTTTTCTTTTCACTTAATTGAGTACTTGAACTTTAAAAATGCATAAAAAAATACTAAAAATTCTT
18113626 CAAAAAAAGCAATTAAGCC
66 CAAAAAAAGCAATTAAGCC
18113645 CATGCTCTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
88 29 0.38
89 6 0.08
90 41 0.54
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (88 bp):
CTTTTCTTTTCACTTAATTGAGTACTTGAACTTTAAAAATGCATAAAAAAATACTAAAAATTCTT
CAAAAAAAGCAATTAAGCCTCTG
Found at i:18113725 original size:20 final size:20
Alignment explanation
Indices: 18113685--18113742 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
18113675 AATTAGAAAA
*
18113685 AATAAAAATTATTAAATTTT
1 AATAAAAATTATTAAAATTT
*
18113705 AATAAAAATT-TTAAAAATT
1 AATAAAAATTATTAAAATTT
*
18113724 --TAAAATTTATTAAAATTT
1 AATAAAAATTATTAAAATTT
18113742 A
1 A
18113743 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 7 0.22
18 8 0.25
19 7 0.22
20 10 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAAAAATTATTAAAATTT
Found at i:18113738 original size:17 final size:16
Alignment explanation
Indices: 18113709--18113742 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18113699 AATTTTAATA
18113709 AAAATTTTAAAAATTT
1 AAAATTTTAAAAATTT
*
18113725 AAAATTTATTAAAATTT
1 AAAATTT-TAAAAATTT
18113742 A
1 A
18113743 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATTTTAAAAATTT
Found at i:18113915 original size:21 final size:20
Alignment explanation
Indices: 18113879--18113924 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
18113869 ACATGTGGCG
18113879 AAAA-ATATAAAGAAATCAAT
1 AAAATATATAAAGAAAT-AAT
*
18113899 AAAATATATAGAA-AAATTAT
1 AAAATATATA-AAGAAATAAT
18113919 AAAATA
1 AAAATA
18113925 CTTATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 12 0.52
21 9 0.39
22 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAATATATAAAGAAATAAT
Found at i:18114067 original size:19 final size:20
Alignment explanation
Indices: 18114045--18114092 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
18114035 ATTTTTTATG
18114045 ATTTTTATA-AAAATTTACA
1 ATTTTTATATAAAATTTACA
***
18114064 ATTTTT-TATATTTTTTACA
1 ATTTTTATATAAAATTTACA
18114083 ATTTTTATAT
1 ATTTTTATAT
18114093 TTTTTCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.79
20 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTATATAAAATTTACA
Found at i:18114097 original size:29 final size:29
Alignment explanation
Indices: 18114033--18114123 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
18114023 CTATATATTT
* * * *
18114033 ATATTTTTTATGATTTTTATAAAAATTTA
1 ATATTTTTTCTAATTTTAATAAAATTTTA
* * * *
18114062 CA-ATTTTTTAT-ATTTT-TTACAATTTTT
1 -ATATTTTTTCTAATTTTAATAAAATTTTA
18114089 ATATTTTTTCTAATTTTAATAAAATTTTA
1 ATATTTTTTCTAATTTTAATAAAATTTTA
18114118 ATATTT
1 ATATTT
18114124 GAATTTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 15 0.30
28 10 0.20
29 23 0.46
30 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
ATATTTTTTCTAATTTTAATAAAATTTTA
Found at i:18114105 original size:9 final size:9
Alignment explanation
Indices: 18114013--18114110 Score: 56
Period size: 9 Copynumber: 10.9 Consensus size: 9
18114003 CTTTATAAAA
18114013 TTTTAT-AT
1 TTTTATAAT
*
18114021 TTCTAT-AT
1 TTTTATAAT
* *
18114029 ATTTATATT
1 TTTTATAAT
*
18114038 TTTTATGAT
1 TTTTATAAT
*
18114047 TTTTATAAAA
1 TTTTAT-AAT
* *
18114057 ATTTACAATT
1 TTTTATAA-T
*
18114067 TTTTATATT
1 TTTTATAAT
*
18114076 TTTTACAAT
1 TTTTATAAT
*
18114085 TTTTATATT
1 TTTTATAAT
*
18114094 TTTTCTAAT
1 TTTTATAAT
*
18114103 TTTAATAA
1 TTTTATAA
18114111 AATTTTAATA
Statistics
Matches: 64, Mismatches: 23, Indels: 5
0.70 0.25 0.05
Matches are distributed among these distances:
8 11 0.17
9 43 0.67
10 10 0.16
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18114105 original size:18 final size:18
Alignment explanation
Indices: 18114030--18114097 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
18114020 TTTCTATATA
**
18114030 TTTATATTTTTTATGATT
1 TTTATATTTTTTACAATT
***
18114048 TTTATAAAAATTTACAATTT
1 TTTAT-ATTTTTTACAA-TT
18114068 TTTATATTTTTTACAATT
1 TTTATATTTTTTACAATT
18114086 TTTATATTTTTT
1 TTTATATTTTTT
18114098 CTAATTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 19 0.47
19 14 0.35
20 7 0.17
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATATTTTTTACAATT
Found at i:18114818 original size:10 final size:10
Alignment explanation
Indices: 18114766--18114854 Score: 51
Period size: 10 Copynumber: 9.1 Consensus size: 10
18114756 ATAAAAAACT
**
18114766 AAATATTATT
1 AAATATTAAA
*
18114776 AAATGTTAATA
1 AAATATTAA-A
* *
18114787 AAAAATTCAA
1 AAATATTAAA
*
18114797 ATATATTTAAA
1 AAATA-TTAAA
18114808 AAATATTAAA
1 AAATATTAAA
*
18114818 AAATA-GAAA
1 AAATATTAAA
18114827 AAATA-T-AA
1 AAATATTAAA
**
18114835 AAATCGTAAA
1 AAATATTAAA
18114845 AAATA-TAAA
1 AAATATTAAA
18114854 A
1 A
18114855 TTTTATAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
8 6 0.10
9 14 0.23
10 27 0.44
11 14 0.23
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (10 bp):
AAATATTAAA
Found at i:18114827 original size:9 final size:9
Alignment explanation
Indices: 18114804--18114854 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 9
18114794 CAAATATATT
18114804 TAAAAAATA
1 TAAAAAATA
18114813 TTAAAAAATA
1 -TAAAAAATA
*
18114823 GAAAAAATA
1 TAAAAAATA
*
18114832 T-AAAAATCG
1 TAAAAAAT-A
18114841 TAAAAAATA
1 TAAAAAATA
18114850 TAAAA
1 TAAAA
18114855 TTTTATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 14 0.40
10 15 0.43
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (9 bp):
TAAAAAATA
Found at i:18114864 original size:18 final size:18
Alignment explanation
Indices: 18114804--18114854 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
18114794 CAAATATATT
*
18114804 TAAAAAATATTAAAAAATAG
1 TAAAAAATA-T-AAAAATCG
18114824 -AAAAAATATAAAAATCG
1 TAAAAAATATAAAAATCG
18114841 TAAAAAATATAAAA
1 TAAAAAATATAAAA
18114855 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.24
18 14 0.48
19 8 0.28
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAAATATAAAAATCG
Found at i:18114892 original size:57 final size:54
Alignment explanation
Indices: 18114785--18114991 Score: 152
Period size: 56 Copynumber: 3.6 Consensus size: 54
18114775 TAAATGTTAA
* * * *
18114785 TAAAAAAT-TCAAATATATTTAAAAAATATTAAAAAATAG-AAAAAATATAAAAATCG
1 TAAAAAATAT-AAA-AT-TTTATAAAATTTTATAAAATCGTAAAAAATATAAAAAT-G
* * *
18114841 TAAAAAATATAAAATTTTATAAAATTTTATGAAAATGGTAAAAGAATAT-AAAGTA
1 TAAAAAATATAAAATTTTATAAAATTTTAT-AAAATCGTAAAA-AATATAAAAATG
** *
18114896 TATAGGAATATAAAAAATTTATAAAATTTTATAAAATCGTAAGAAAATTATAAAAAATG
1 TA-AAAAATAT-AAAATTTTATAAAATTTTATAAAATCGTAA-AAAA-TAT-AAAAATG
*
18114955 TAAAGAAATAT-AAATTTTGTTAAAAGTTTTTATAAAA
1 TAAA-AAATATAAAATTTT-ATAAAA--TTTTATAAAA
18114992 ATTATTGTAC
Statistics
Matches: 121, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
54 12 0.10
55 10 0.08
56 36 0.30
57 36 0.30
58 6 0.05
59 11 0.09
60 10 0.08
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (54 bp):
TAAAAAATATAAAATTTTATAAAATTTTATAAAATCGTAAAAAATATAAAAATG
Found at i:18114942 original size:21 final size:21
Alignment explanation
Indices: 18114918--18114962 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18114908 AAAAATTTAT
* *
18114918 AAAATTTTATAAAATCGT-AAG
1 AAAATTATAAAAAAT-GTAAAG
18114939 AAAATTATAAAAAATGTAAAG
1 AAAATTATAAAAAATGTAAAG
18114960 AAA
1 AAA
18114963 TATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATAAAAAATGTAAAG
Found at i:18114966 original size:67 final size:65
Alignment explanation
Indices: 18114841--18114966 Score: 155
Period size: 67 Copynumber: 1.9 Consensus size: 65
18114831 ATAAAAATCG
** * * *
18114841 TAAAAAATATAAAATTTTATAAAATTTTATGAAAATGGTAAAAGAATATAAAGTATATAGGAATA
1 TAAAAAATATAAAATTTTATAAAATCGTAAGAAAATGATAAAAGAATATAAAGAATATAGGAATA
* *
18114906 TAAAAAATTTATAAAATTTTATAAAATCGTAAGAAAATTATAAAA-AATGTAAAGAAATATA
1 TAAAAAA--TATAAAATTTTATAAAATCGTAAGAAAATGATAAAAGAATATAAAG-AATATA
18114967 AATTTTGTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
65 7 0.14
66 8 0.16
67 36 0.71
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.32
Consensus pattern (65 bp):
TAAAAAATATAAAATTTTATAAAATCGTAAGAAAATGATAAAAGAATATAAAGAATATAGGAATA
Found at i:18115294 original size:89 final size:88
Alignment explanation
Indices: 18115133--18115320 Score: 227
Period size: 89 Copynumber: 2.1 Consensus size: 88
18115123 TAGCGGCGTC
* * *
18115133 ATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTAATACATTTTGAAAGTTCAAGTACCCAACTGA
1 ATTGCTTTTTTGAAAAAGTTTGAGGGCCTCTTTAATACATTTTGAAAGTTCAAGTACCCAACTGA
*
18115198 GTGAAAAAAA-AAACAGGGGTTTA
66 GTGAAAAAAAGAAACA-GGGCTTA
* * * * * *
18115221 ATTGCTTTTCTTGAAGAAGTTTGAGGGCCTCTTTGATACATTTTGAAAGTT-TAGTGCTCAATTG
1 ATTGCTTTT-TTGAAAAAGTTTGAGGGCCTCTTTAATACATTTTGAAAGTTCAAGTACCCAACTG
*
18115285 AGTGCAAAAAAAGAAGCAGGGCTTA
65 AGTG-AAAAAAAGAAACAGGGCTTA
*
18115310 ATTGTTTTTTT
1 ATTGCTTTTTT
18115321 TTAAATAATT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
88 24 0.28
89 57 0.67
90 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (88 bp):
ATTGCTTTTTTGAAAAAGTTTGAGGGCCTCTTTAATACATTTTGAAAGTTCAAGTACCCAACTGA
GTGAAAAAAAGAAACAGGGCTTA
Found at i:18121843 original size:45 final size:45
Alignment explanation
Indices: 18121794--18121906 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
18121784 AAGTGGTGCA
**
18121794 ATAGTATCTTTCAACTATGGG-CTTGATTCATTCACA-TTTAATGCC
1 ATAGTATCTTTCAACTATGGGTCTT-ACCCATTCA-AGTTTAATGCC
*
18121839 ATAGTATCTTTCAACTA-GGGTCTTACCCGTTCAAGTTTAATGCC
1 ATAGTATCTTTCAACTATGGGTCTTACCCATTCAAGTTTAATGCC
*
18121883 ATAGTATCTTTCAATTAT-GGTCTT
1 ATAGTATCTTTCAACTATGGGTCTT
18121907 TCTCATTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 40 0.66
45 20 0.33
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (45 bp):
ATAGTATCTTTCAACTATGGGTCTTACCCATTCAAGTTTAATGCC
Found at i:18126094 original size:17 final size:17
Alignment explanation
Indices: 18126072--18126111 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
18126062 CAAAAAAGTC
18126072 TGCCAAACCCTAGAGTT
1 TGCCAAACCCTAGAGTT
*
18126089 TGCC-AACCTTAGAGTT
1 TGCCAAACCCTAGAGTT
*
18126105 CGCCAAA
1 TGCCAAA
18126112 TAGCGAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (17 bp):
TGCCAAACCCTAGAGTT
Found at i:18127162 original size:139 final size:141
Alignment explanation
Indices: 18126885--18127177 Score: 337
Period size: 139 Copynumber: 2.1 Consensus size: 141
18126875 AAAAAAATTT
***
18126885 CTATAAAAATCCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACTAGGGAAAAGTTTAA
1 CTAT-AAAA-CCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACTA-GGAAAAAACTAA
* * * * *
18126950 AATTAATTCCAGAAAATGAAAAAAATTAAAGGAAATTAAAAAGATAAAATGATTTTTCCTATAAA
63 AACTAATTCCAGAAAAAGAAAAAAATTAAAGGAAATAAAAAAGATAAAATGACTTTTCCCATAAA
*
18127015 GACCTAAGCTTTTC
128 AACCTAAGCTTTTC
* * * **
18127029 CTATAAAACCAGTTAATTCCTTGTAAAACCTCGTGTTTTTCCTTTTA-TCA-GAAAAAACTAAAA
1 CTATAAAACCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACT-AGGAAAAAACTAAAA
*
18127092 CTAATTCTA-AAAAAGAGAAAAAA-TAAA-GAATATAAAAAAGAT-AAATGACTTTTCCACATAA
65 CTAATTCCAGAAAAAGA-AAAAAATTAAAGGAA-ATAAAAAAGATAAAATGACTTTTCC-CATAA
18127153 AAACCTAAGCTTTTC
127 AAACCTAAGCTTTTC
18127168 CATATAAAAC
1 C-TATAAAAC
18127178 TCAAGTTTTT
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
138 15 0.12
139 39 0.30
140 31 0.24
141 1 0.01
142 35 0.27
143 4 0.03
144 4 0.03
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (141 bp):
CTATAAAACCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACTAGGAAAAAACTAAAAC
TAATTCCAGAAAAAGAAAAAAATTAAAGGAAATAAAAAAGATAAAATGACTTTTCCCATAAAAAC
CTAAGCTTTTC
Found at i:18131364 original size:46 final size:46
Alignment explanation
Indices: 18131191--18131375 Score: 212
Period size: 46 Copynumber: 4.0 Consensus size: 46
18131181 CAGGGCTTAT
* ** * * *
18131191 TATTCCTGTATTCTTGAGTTTGCAACATATACAGGAACTCAGAACC
1 TATTCCTGTATTCTCGAGTCCGCAACATATGCAGGAGCTTAGAACC
*
18131237 TAATCCTGTATTCTCGAGTCCGCAACATAT-CAGGAGCTTAGAACC
1 TATTCCTGTATTCTCGAGTCCGCAACATATGCAGGAGCTTAGAACC
* * * * * *
18131282 TAGTCATGTATTCTCAAGTCCGTAACATATGCAGGAGCTTGGAACT
1 TATTCCTGTATTCTCGAGTCCGCAACATATGCAGGAGCTTAGAACC
* *
18131328 TATTCCTGTAATCTCGAGTCCACAACATATGCAGGAGCTCTA-AACC
1 TATTCCTGTATTCTCGAGTCCGCAACATATGCAGGAGCT-TAGAACC
18131374 TA
1 TA
18131376 GGCAAACTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
45 39 0.33
46 77 0.66
47 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (46 bp):
TATTCCTGTATTCTCGAGTCCGCAACATATGCAGGAGCTTAGAACC
Found at i:18132090 original size:26 final size:26
Alignment explanation
Indices: 18132061--18132113 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
18132051 ATGCTTAAGG
18132061 GATAATTAACAAAATTCCATAAAAAT
1 GATAATTAACAAAATTCCATAAAAAT
*
18132087 GATAATTAGCAAAATTCCATAAAAAT
1 GATAATTAACAAAATTCCATAAAAAT
18132113 G
1 G
18132114 TTCATAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (26 bp):
GATAATTAACAAAATTCCATAAAAAT
Found at i:18134498 original size:46 final size:46
Alignment explanation
Indices: 18134403--18134684 Score: 243
Period size: 46 Copynumber: 6.2 Consensus size: 46
18134393 TCCCATCCAC
* * * * * * * *
18134403 GGTCTTATTTATCTTC-GACATGATGCCATAGTGTCTTTCGACTAT
1 GGTCTTACTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* ** *
18134448 GGTCTTACTTATTTTCTGTCATGTTTCCATGGTATCTCCCATCCAT
1 GGTCTTACTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * * * * * * * *
18134494 GGTCTTATTTATCTTC-GACACGATGCCATAGTGTCTTTCGACTAT
1 GGTCTTACTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
18134539 GGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
18134585 GGTCTTA-TTCA-TTTCATGTCACT-CTGCCATGGCATCTTTCAACCAT
1 GGTCTTACTT-ATTTTC-TGTCA-TGTTGCCATGGTATCTTTCAACCAT
** *
18134631 GGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACTTATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
18134677 GGTCTTAC
1 GGTCTTAC
18134685 ACATTTCATT
Statistics
Matches: 187, Mismatches: 43, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
45 51 0.27
46 135 0.72
47 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
GGTCTTACTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:18134546 original size:91 final size:91
Alignment explanation
Indices: 18134391--18134683 Score: 356
Period size: 91 Copynumber: 3.2 Consensus size: 91
18134381 TGTCATAGCG
* *
18134391 TCTCCCATCCACGGTCTTATTTATCTTCGACATGATGCCATAGTGTCTTTCGACTATGGTCTTAC
1 TCTCCCATCCATGGTCTTATTTATCTTCGACACGATGCCATAGTGTCTTTCGACTATGGTCTTAC
* *
18134456 TTATTTTCTGTCATGTTTCCATGGTA
66 TCATTTTCTGTCATGTTGCCATGGTA
18134482 TCTCCCATCCATGGTCTTATTTATCTTCGACACGATGCCATAGTGTCTTTCGACTATGGTCTTAC
1 TCTCCCATCCATGGTCTTATTTATCTTCGACACGATGCCATAGTGTCTTTCGACTATGGTCTTAC
18134547 TCATTTTCTGTCATGTTGCCATGGTA
66 TCATTTTCTGTCATGTTGCCATGGTA
** * * * ** * ** * *
18134573 TCTTTCAACCATGGTCTTATTCAT-TTCATGTCACTCTGCCATGGCATCTTTCAACCATGGTCTT
1 TCTCCCATCCATGGTCTTATTTATCTTC--GACACGATGCCATAGTGTCTTTCGACTATGGTCTT
* *
18134637 ACACA-TTTCATATCATGTTGCCATGGTA
64 ACTCATTTTC-TGTCATGTTGCCATGGTA
** *
18134665 TCTTTCAACCATGGTCTTA
1 TCTCCCATCCATGGTCTTA
18134684 CACATTTCAT
Statistics
Matches: 181, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
90 3 0.02
91 111 0.61
92 67 0.37
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (91 bp):
TCTCCCATCCATGGTCTTATTTATCTTCGACACGATGCCATAGTGTCTTTCGACTATGGTCTTAC
TCATTTTCTGTCATGTTGCCATGGTA
Found at i:18134877 original size:13 final size:13
Alignment explanation
Indices: 18134859--18134885 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18134849 TTACCAGTCC
18134859 AGGCTAAATTCAG
1 AGGCTAAATTCAG
18134872 AGGCTAAATTCAG
1 AGGCTAAATTCAG
18134885 A
1 A
18134886 CCCTAATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AGGCTAAATTCAG
Found at i:18136590 original size:10 final size:11
Alignment explanation
Indices: 18136556--18136588 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18136546 CTTTCTTTAT
*
18136556 ATAAGAAAAAA
1 ATAATAAAAAA
18136567 ATAATAAAAAA
1 ATAATAAAAAA
18136578 ATAATAAAAAA
1 ATAATAAAAAA
18136589 TATCTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:18144332 original size:12 final size:12
Alignment explanation
Indices: 18144317--18144341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18144307 TCTATATGTT
18144317 ACACTATAAATA
1 ACACTATAAATA
18144329 ACACTATAAATA
1 ACACTATAAATA
18144341 A
1 A
18144342 GTATTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ACACTATAAATA
Found at i:18154936 original size:29 final size:29
Alignment explanation
Indices: 18154901--18154958 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
18154891 TGTAACTGAA
18154901 GTTAATGTATTATTTACATACAAACTTAC
1 GTTAATGTATTATTTACATACAAACTTAC
18154930 GTTAATGTATTATTTACATACAAACTTAC
1 GTTAATGTATTATTTACATACAAACTTAC
18154959 CTCGGTGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
GTTAATGTATTATTTACATACAAACTTAC
Found at i:18157312 original size:39 final size:39
Alignment explanation
Indices: 18157257--18157334 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
18157247 AAAACAATTA
18157257 ATTCACTCTAGAGGCTTGAAATATAACACTTTTCAAGAG
1 ATTCACTCTAGAGGCTTGAAATATAACACTTTTCAAGAG
** * *
18157296 ATTCACTCTATTGGCTTTAAATATAACTCTTTTCAAGAG
1 ATTCACTCTAGAGGCTTGAAATATAACACTTTTCAAGAG
18157335 TTATAACACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (39 bp):
ATTCACTCTAGAGGCTTGAAATATAACACTTTTCAAGAG
Found at i:18165908 original size:42 final size:42
Alignment explanation
Indices: 18165837--18165926 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
18165827 TATGTGTAAA
* *
18165837 ACCATATCTGGGATATGGCATCAAAATGAGA-TTACGCATAAG
1 ACCATATCTAGGATATGACATCAAAATGAGACTT-CGCATAAG
** * **
18165879 ACCATATCTAGGATATGACATTGATATGAGACTTCGTGTAAG
1 ACCATATCTAGGATATGACATCAAAATGAGACTTCGCATAAG
18165921 ACCATA
1 ACCATA
18165927 GCTGGGCTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
ACCATATCTAGGATATGACATCAAAATGAGACTTCGCATAAG
Found at i:18167723 original size:40 final size:40
Alignment explanation
Indices: 18167679--18167758 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
18167669 AGTCTCGAAC
* *
18167679 TGTAACATCCCAAATTAGAG-TCTAGTCAGAATAGTGGTTT
1 TGTAACATCCCAAATTAGGGCT-TAATCAGAATAGTGGTTT
* **
18167719 TGTAATATCCTGAATTAGGGCTTAATCAGAATAGTGGTTT
1 TGTAACATCCCAAATTAGGGCTTAATCAGAATAGTGGTTT
18167759 CGTGACCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (40 bp):
TGTAACATCCCAAATTAGGGCTTAATCAGAATAGTGGTTT
Found at i:18169123 original size:47 final size:47
Alignment explanation
Indices: 18169005--18169174 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
18168995 AGATGGTTGA
*
18169005 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
18169053 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
18169096 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
18169145 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
18169175 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 29 0.27
47 32 0.30
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:18169174 original size:92 final size:93
Alignment explanation
Indices: 18169005--18169175 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
18168995 AGATGGTTGA
* *
18169005 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18169070 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18169098 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18169162 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18169176 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 41 0.55
93 34 0.45
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18175837 original size:46 final size:46
Alignment explanation
Indices: 18175787--18175962 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18175777 TGGTTGAGCA
18175787 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18175833 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18175878 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18175926 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18175963 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18175943 original size:93 final size:93
Alignment explanation
Indices: 18175784--18175955 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18175774 GGATGGTTGA
* *
18175784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18175849 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18175877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18175942 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18175956 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18182654 original size:46 final size:46
Alignment explanation
Indices: 18182604--18182779 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18182594 TGGTTGAGCA
18182604 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18182650 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18182695 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18182743 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18182780 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18182760 original size:93 final size:93
Alignment explanation
Indices: 18182601--18182772 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18182591 GGATGGTTGA
* *
18182601 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18182666 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18182694 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18182759 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18182773 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18190675 original size:51 final size:51
Alignment explanation
Indices: 18190616--18190718 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
18190606 GAAAACCAAA
18190616 GAGTCTGAATCAAAAATTGAATCAGTGTCTGTCATATGTGAGTATTCGGAT
1 GAGTCTGAATCAAAAATTGAATCAGTGTCTGTCATATGTGAGTATTCGGAT
18190667 GAGTCTGAATCAAAAATTGAATCAGTGTCTGTCATATGTGAGTATTCGGAT
1 GAGTCTGAATCAAAAATTGAATCAGTGTCTGTCATATGTGAGTATTCGGAT
18190718 G
1 G
18190719 TATTCTCGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
GAGTCTGAATCAAAAATTGAATCAGTGTCTGTCATATGTGAGTATTCGGAT
Found at i:18194910 original size:20 final size:20
Alignment explanation
Indices: 18194885--18194936 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
18194875 ATGGTTGAGG
18194885 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
18194905 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
*
18194925 ACACGGTCGTGT
1 ACACGGGCGTGT
18194937 GTGGCCACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:18201342 original size:20 final size:20
Alignment explanation
Indices: 18201317--18201368 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
18201307 ATGGTTGAGG
18201317 ACACGGACGTGTCCCAAGCC
1 ACACGGACGTGTCCCAAGCC
*
18201337 ACACGGGCGTGTCCCAAGCC
1 ACACGGACGTGTCCCAAGCC
*
18201357 ACACGGTCGTGT
1 ACACGGACGTGT
18201369 GTGGCCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.13
Consensus pattern (20 bp):
ACACGGACGTGTCCCAAGCC
Found at i:18207747 original size:22 final size:22
Alignment explanation
Indices: 18207707--18207749 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18207697 GACTATGAGA
*
18207707 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAATTATGTGG
18207729 TCTGAGCTCAT-AATATATGTG
1 TCTGAGCTCATGAAT-TATGTG
18207750 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGAATTATGTGG
Found at i:18210841 original size:15 final size:13
Alignment explanation
Indices: 18210796--18210847 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
18210786 GCTCGGTAGG
* *
18210796 GACACGCCCTTGT
1 GACACACCCGTGT
*
18210809 GACACGCCCGTGT
1 GACACACCCGTGT
18210822 GACACACCCGTGT
1 GACACACCCGTGT
18210835 GACACACCCGTGT
1 GACACACCCGTGT
18210848 TCAATTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.17
Consensus pattern (13 bp):
GACACACCCGTGT
Found at i:18213062 original size:12 final size:11
Alignment explanation
Indices: 18213045--18213078 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
18213035 GCTGGTACAC
18213045 ACGGCCGTGCTT
1 ACGGCCGTG-TT
18213057 ACGGCCGTGTT
1 ACGGCCGTGTT
18213068 ACAGGCCGTGT
1 AC-GGCCGTGT
18213079 GGTGCTGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.12, C:0.29, G:0.35, T:0.24
Consensus pattern (11 bp):
ACGGCCGTGTT
Found at i:18220983 original size:30 final size:29
Alignment explanation
Indices: 18220889--18220990 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 29
18220879 TATAGTGAAT
* *
18220889 CCGCACACTTAGTGCTATAAATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18220918 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18220946 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18220976 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18220991 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 23 0.37
29 18 0.29
30 21 0.34
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18228853 original size:30 final size:29
Alignment explanation
Indices: 18228759--18228860 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 29
18228749 TATAGTGAAT
* *
18228759 CCGCACACTTAGTGCTATAAATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18228788 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18228816 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18228846 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18228861 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 23 0.37
29 18 0.29
30 21 0.34
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18233709 original size:20 final size:20
Alignment explanation
Indices: 18233672--18233711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18233662 TTTTAAGCAG
*
18233672 AGTTACAGGTTTTTAACACA
1 AGTTACAGGTTTTAAACACA
18233692 AGTTACA-GTTTTCAAACACA
1 AGTTACAGGTTTT-AAACACA
18233712 CTACCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTTACAGGTTTTAAACACA
Found at i:18250863 original size:93 final size:93
Alignment explanation
Indices: 18250751--18250921 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
18250741 GCCCATAAGT
* *
18250751 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18250816 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18250844 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18250909 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18250922 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18250918 original size:46 final size:46
Alignment explanation
Indices: 18250743--18250918 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
18250733 TGTAACCCGC
* * *
18250743 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18250789 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
18250839 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18250882 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18250919 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18260508 original size:66 final size:68
Alignment explanation
Indices: 18260432--18260618 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
18260422 TAGTACCACT
*
18260432 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
18260494 CACG
65 CACG
18260498 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
18260563 ATCACG
63 ATCACG
18260569 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
18260619 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:18260543 original size:71 final size:71
Alignment explanation
Indices: 18260455--18260618 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18260445 CGATTTGTCT
18260455 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18260520 CTTTCA
66 CTTTCA
18260526 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18260591 CTTTCA
66 CTTTCA
18260597 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18260619 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18260656 original size:71 final size:70
Alignment explanation
Indices: 18260455--18260652 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
18260445 CGATTTGTCT
* * *
18260455 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
18260520 CTTTCA
65 CTTTCA
* * *
18260526 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
18260591 CTTTCA
65 CTTTCA
* *
18260597 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
18260653 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18268070 original size:66 final size:68
Alignment explanation
Indices: 18267994--18268180 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
18267984 TAGTACCACT
*
18267994 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
18268056 CACG
65 CACG
18268060 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
18268125 ATCACG
63 ATCACG
18268131 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
18268181 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:18268105 original size:71 final size:71
Alignment explanation
Indices: 18268017--18268180 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18268007 CGATTTGTCT
18268017 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18268082 CTTTCA
66 CTTTCA
18268088 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18268153 CTTTCA
66 CTTTCA
18268159 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18268181 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18268218 original size:71 final size:70
Alignment explanation
Indices: 18268017--18268214 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
18268007 CGATTTGTCT
* * *
18268017 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
18268082 CTTTCA
65 CTTTCA
* * *
18268088 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
18268153 CTTTCA
65 CTTTCA
* *
18268159 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
18268215 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18273977 original size:17 final size:17
Alignment explanation
Indices: 18273957--18273999 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18273947 ATGCATAATC
18273957 ATAGTTCAT-TCAATATA
1 ATAGTTCATAT-AATATA
18273974 ATAGTTCATATAATATA
1 ATAGTTCATATAATATA
*
18273991 ATAATTCAT
1 ATAGTTCAT
18274000 CCATCCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (17 bp):
ATAGTTCATATAATATA
Found at i:18274972 original size:31 final size:33
Alignment explanation
Indices: 18274929--18275003 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
18274919 CGCTAGCATT
*
18274929 ACAAAACCCATATA-CATATATATTATATA-AA
1 ACAAGACCCATATAGCATATATATTATATATAA
18274960 ACAAGACCCATATATGCATATATATTATATATAA
1 ACAAGACCCATATA-GCATATATATTATATATAA
*
18274994 TCAAGACCCA
1 ACAAGACCCA
18275004 CACATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 13 0.33
33 15 0.38
34 11 0.28
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (33 bp):
ACAAGACCCATATAGCATATATATTATATATAA
Found at i:18275017 original size:35 final size:33
Alignment explanation
Indices: 18274940--18275019 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
18274930 CAAAACCCAT
* *
18274940 ATACATATATATTATATAAAACAAGACCCATAT
1 ATACATATATATTATATAAAACAAGACCCACAC
* *
18274973 ATGCATATATATTATATATAATCAAGACCCACAC
1 ATACATATATATTATATA-AAACAAGACCCACAC
*
18275007 ATATATTATATAT
1 ATACA-TATATAT
18275020 ACATACCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 17 0.44
34 15 0.38
35 7 0.18
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (33 bp):
ATACATATATATTATATAAAACAAGACCCACAC
Found at i:18276672 original size:18 final size:18
Alignment explanation
Indices: 18276649--18276687 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18276639 TTTTTCTCAA
*
18276649 TTATTTTCAAACTCGATT
1 TTATTTTCAAAATCGATT
* *
18276667 TTATTTTTAAAATCTATT
1 TTATTTTCAAAATCGATT
18276685 TTA
1 TTA
18276688 CGTTATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATTTTCAAAATCGATT
Found at i:18279467 original size:40 final size:40
Alignment explanation
Indices: 18279383--18279567 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
18279373 TCGAATGATG
* *
18279383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
18279422 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18279463 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
18279502 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18279541 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18279568 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:18279519 original size:79 final size:81
Alignment explanation
Indices: 18279383--18279565 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
18279373 TCGAATGATG
* *
18279383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
18279447 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
18279462 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
18279524 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
18279542 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18279566 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:18279589 original size:79 final size:78
Alignment explanation
Indices: 18279384--18279600 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
18279374 CGAATGATGT
* *
18279384 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
18279447 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
18279464 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
18279527 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
18279543 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
18279601 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:18287624 original size:79 final size:81
Alignment explanation
Indices: 18287490--18287670 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 81
18287480 CGAATGATGT
* *
18287490 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
18287554 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * **
18287570 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
18287632 GTGCGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
18287649 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
18287671 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 60 0.67
80 28 0.31
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:18287686 original size:40 final size:40
Alignment explanation
Indices: 18287490--18287672 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
18287480 CGAATGATGT
* * *
18287490 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* *
18287530 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
*
18287570 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
18287609 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
18287649 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
18287673 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:18287694 original size:79 final size:77
Alignment explanation
Indices: 18287522--18287705 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 77
18287512 GTGCTAAGTG
* *
18287522 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
18287587 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
18287601 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
18287665 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
18287680 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
18287706 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 58 0.64
80 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:18293334 original size:20 final size:21
Alignment explanation
Indices: 18293311--18293349 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18293301 CAAAATTTAT
18293311 AAAAATAAAAAAT-TAAAATC
1 AAAAATAAAAAATATAAAATC
*
18293331 AAAATTAAAAAATATAAAA
1 AAAAATAAAAAATATAAAA
18293350 AGTTCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAATAAAAAATATAAAATC
Found at i:18294699 original size:2 final size:2
Alignment explanation
Indices: 18294692--18294720 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18294682 GAGCTTGTCA
18294692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18294721 AACAGCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18296794 original size:2 final size:2
Alignment explanation
Indices: 18296789--18296826 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18296779 TTTTTTACTT
18296789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18296827 AAATATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18297549 original size:3 final size:3
Alignment explanation
Indices: 18297543--18297582 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18297533 TAGCAAAGAA
18297543 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
18297583 GGAAACATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:18300255 original size:10 final size:10
Alignment explanation
Indices: 18300240--18300268 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18300230 TTCCAATTAA
18300240 TTTCTTTTTT
1 TTTCTTTTTT
18300250 TTTCTTTTTT
1 TTTCTTTTTT
18300260 TTT-TTTTTT
1 TTTCTTTTTT
18300269 GCCGTATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:18303865 original size:45 final size:45
Alignment explanation
Indices: 18303733--18303898 Score: 156
Period size: 45 Copynumber: 3.6 Consensus size: 45
18303723 TATTGTTGAT
* * * *
18303733 TAGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGTTTG-GACATGCATCGGCCTCGA-GACGAGAGC
* * * * *
18303779 TCGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGC
1 TAGTGTAAGA-CATGT-TTGGACAT-GCATCGGCCTCGAGACGAGAGC
18303827 TAGTGTAAGACATGTTTGGACATGCATCGGCCTCGAGACGTA-AGC
1 TAGTGTAAGACATGTTTGGACATGCATCGGCCTCGAGACG-AGAGC
* *
18303872 CAGTGTAAGACATATTTGGGACATGCA
1 TAGTGTAAGACATGTTT-GGACATGCA
18303899 CTGGCTACGA
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
45 32 0.33
46 26 0.27
47 15 0.15
48 24 0.24
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
TAGTGTAAGACATGTTTGGACATGCATCGGCCTCGAGACGAGAGC
Found at i:18303928 original size:45 final size:45
Alignment explanation
Indices: 18303872--18303987 Score: 160
Period size: 45 Copynumber: 2.5 Consensus size: 45
18303862 AGACGTAAGC
* *
18303872 CAGTGTAAGACATATTTGGGACATGCACTGGCTACGAGATGATAAT
1 CAGTGT-AGACATATCTGGGACATGCACCGGCTACGAGATGATAAT
*
18303918 CAGTGTAGACATATCTGGGACATGCACCGGCTACGAGATGATAGT
1 CAGTGTAGACATATCTGGGACATGCACCGGCTACGAGATGATAAT
* *
18303963 CAGTGTAAGATCATGTCTGAGACAT
1 CAGTGT-AGA-CATATCTGGGACAT
18303988 AGCATCGACT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 42 0.67
46 9 0.14
47 12 0.19
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
CAGTGTAGACATATCTGGGACATGCACCGGCTACGAGATGATAAT
Found at i:18309870 original size:24 final size:22
Alignment explanation
Indices: 18309841--18309918 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 22
18309831 CTGTATACTA
18309841 CCTTTGTGGCTTATTCTAATTTGG
1 CCTTTGTGGC-TATTCT-ATTTGG
*
18309865 CCTTTGTGGC-ATTCT-TTTAG
1 CCTTTGTGGCTATTCTATTTGG
*
18309885 CCTTAGTGGCGTATTCTGATTTGG
1 CCTTTGTGGC-TATTCT-ATTTGG
18309909 CCTTTGTGGC
1 CCTTTGTGGC
18309919 ATTTTGTTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 13 0.28
22 10 0.22
24 23 0.50
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (22 bp):
CCTTTGTGGCTATTCTATTTGG
Found at i:18309900 original size:22 final size:22
Alignment explanation
Indices: 18309841--18309938 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 22
18309831 CTGTATACTA
*
18309841 CCTTTGTGGCTTATTCTAATTTGG
1 CCTTTGTGGC-TATTCT-ATTTAG
18309865 CCTTTGTGGC-ATTCT-TTTAG
1 CCTTTGTGGCTATTCTATTTAG
* *
18309885 CCTTAGTGGCGTATTCTGATTTGG
1 CCTTTGTGGC-TATTCT-ATTTAG
18309909 CCTTTGTGGC-ATT-T-TGTTAG
1 CCTTTGTGGCTATTCTAT-TTAG
*
18309929 ACTTTGTGGC
1 CCTTTGTGGC
18309939 ATACTCTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.02
20 25 0.40
21 1 0.02
22 13 0.21
24 23 0.37
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.47
Consensus pattern (22 bp):
CCTTTGTGGCTATTCTATTTAG
Found at i:18309900 original size:44 final size:44
Alignment explanation
Indices: 18309841--18309938 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
18309831 CTGTATACTA
*
18309841 CCTTTGTGGCTTATTCTAATTTGGCCTTTGTGGCATTCTT-TTAG
1 CCTTTGTGGCGTATTCTAATTTGGCCTTTGTGGCATT-TTGTTAG
* *
18309885 CCTTAGTGGCGTATTCTGATTTGGCCTTTGTGGCATTTTGTTAG
1 CCTTTGTGGCGTATTCTAATTTGGCCTTTGTGGCATTTTGTTAG
*
18309929 ACTTTGTGGC
1 CCTTTGTGGC
18309939 ATACTCTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.47
Consensus pattern (44 bp):
CCTTTGTGGCGTATTCTAATTTGGCCTTTGTGGCATTTTGTTAG
Found at i:18311179 original size:14 final size:15
Alignment explanation
Indices: 18311146--18311181 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
18311136 GGATTATATT
18311146 ATTACAAAAGGAAAG
1 ATTACAAAAGGAAAG
*
18311161 TTTACAAAA-GAAAG
1 ATTACAAAAGGAAAG
18311175 ATTACAA
1 ATTACAA
18311182 GGAGGGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.19
Consensus pattern (15 bp):
ATTACAAAAGGAAAG
Found at i:18312182 original size:14 final size:13
Alignment explanation
Indices: 18312157--18312181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18312147 ATATGCTTGT
18312157 AAAAAGTATTTTG
1 AAAAAGTATTTTG
18312170 AAAAAGTATTTT
1 AAAAAGTATTTT
18312182 TAAATTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
AAAAAGTATTTTG
Found at i:18313320 original size:7 final size:7
Alignment explanation
Indices: 18313310--18313346 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
18313300 AGAAGAGAAT
18313310 GATGAGG
1 GATGAGG
18313317 GATGAGG
1 GATGAGG
18313324 GATGAGG
1 GATGAGG
*
18313331 GATGATG
1 GATGAGG
*
18313338 AATGAGG
1 GATGAGG
18313345 GA
1 GA
18313347 ATGAAGGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (7 bp):
GATGAGG
Found at i:18318305 original size:24 final size:24
Alignment explanation
Indices: 18318273--18318431 Score: 255
Period size: 24 Copynumber: 6.6 Consensus size: 24
18318263 TATCTCAAAT
*
18318273 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
18318297 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
*
18318321 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
18318345 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
18318369 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
18318393 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
18318417 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
18318432 ACATAATAAG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 129 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:18318444 original size:48 final size:48
Alignment explanation
Indices: 18318273--18318453 Score: 256
Period size: 48 Copynumber: 3.8 Consensus size: 48
18318263 TATCTCAAAT
* *
18318273 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATG
* * *
18318321 GCACTATGTGTGCGATTTGCTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATG
*
18318369 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATG
* ** *
18318417 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ATTTACTATAGCACTATGTGTGC
18318454 CACATTCGGT
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
48 116 0.96
49 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATG
Found at i:18318445 original size:72 final size:72
Alignment explanation
Indices: 18318273--18318453 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 72
18318263 TATCTCAAAT
* * * * *
18318273 GCACTATGTGTGCGA-TTCACTATGGCACTATGTGTGCGATTTGCTATGGCACTATGTGTGCGAT
1 GCACTATGTGTGCGACAT-AATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGAT
*
18318337 TTGCTATG
65 TTGCTATA
** * *
18318345 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
1 GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
18318410 TGCTATA
66 TGCTATA
*
18318417 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
18318454 CACATTCGGT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 92 0.93
73 7 0.07
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
TGCTATA
Found at i:18326102 original size:24 final size:24
Alignment explanation
Indices: 18326070--18326226 Score: 255
Period size: 24 Copynumber: 6.6 Consensus size: 24
18326060 TATCTCAAAT
*
18326070 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
18326094 GCACTATGTGTGCGATTTACTAT-
1 GCACTATGTGTGCGATTTACTATG
18326117 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
18326141 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
18326165 GCACTA-GTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
18326188 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
18326212 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
18326227 ACATAATAAG
Statistics
Matches: 127, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 45 0.35
24 82 0.65
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:18326119 original size:47 final size:48
Alignment explanation
Indices: 18326070--18326226 Score: 255
Period size: 47 Copynumber: 3.3 Consensus size: 48
18326060 TATCTCAAAT
*
18326070 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTAT-
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
*
18326117 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
* *
18326165 GCACTA-GTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
*
18326212 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
18326227 ACATAATAAG
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
47 89 0.86
48 14 0.14
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
Found at i:18326145 original size:71 final size:71
Alignment explanation
Indices: 18326070--18326226 Score: 262
Period size: 71 Copynumber: 2.2 Consensus size: 71
18326060 TATCTCAAAT
18326070 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTAT-GCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTA-GTGTGCGATTTACTATAGCACTATGTGTGCGATT
*
18326134 TACTATG
65 TACTATA
*
18326141 GCACTATGTGTGCGATTTACTATGGCACTAGTGTGCGATTTACTATAGCACTATGTGTGCGATTT
1 GCACTATGTGTGCGATTCACTATGGCACTAGTGTGCGATTTACTATAGCACTATGTGTGCGATTT
*
18326206 GCTATA
66 ACTATA
*
18326212 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
18326227 ACATAATAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 16 0.20
71 65 0.80
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (71 bp):
GCACTATGTGTGCGATTCACTATGGCACTAGTGTGCGATTTACTATAGCACTATGTGTGCGATTT
ACTATA
Found at i:18333834 original size:79 final size:79
Alignment explanation
Indices: 18333693--18333940 Score: 272
Period size: 79 Copynumber: 3.1 Consensus size: 79
18333683 CCTTCGGAGT
* * * *
18333693 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGT-TATAGTAACTCGC
1 TTAACCCGGATTTAG-TAACTCGTACAAATGCCTTC-GGACTTAGTCC-GTATATAGTAACTCGC
18333755 ACAAATGCCTTCGGGAC
63 ACAAATGCCTTCGGGAC
* *
18333772 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGACTTAGTCCGTATTTAGTAACTCGCACG
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGACTTAGTCCGTATATAGTAACTCGCACA
*
18333837 AATGCCTTC-GGATA
66 AATGCCTTCGGGA-C
** * * * * *
18333851 TTAGTCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGA-CTTAGTCCGTATATAGTAAC-TCGCA
18333916 CAAA-GCCTTCGGGAC
64 CAAATGCCTTCGGGAC
*
18333931 TTAGCCCGGA
1 TTAACCCGGA
18333941 CATCATTCGA
Statistics
Matches: 144, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
78 5 0.03
79 71 0.49
80 58 0.40
81 10 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (79 bp):
TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGACTTAGTCCGTATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:18333900 original size:119 final size:120
Alignment explanation
Indices: 18333718--18333934 Score: 282
Period size: 119 Copynumber: 1.8 Consensus size: 120
18333708 TACTCGTTCA
18333718 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
18333783 TTAGTAAC-TCGTACAAATGCCTTC-GGACTTAGTCCGTATTTAGTAACTCGCACG
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGTCCGTATTTAGTAACTCGCACG
* * * **
18333837 AATGCCTTC-GGATATTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCG
1 AATGCCTTCGGGACA-TAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
18333899 GATATAGTCACTTAGCACAAAGCCTTCGGGACTTAG
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAG
18333935 CCCGGACATC
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
118 7 0.08
119 60 0.71
120 17 0.20
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGTCCGTATTTAGTAACTCGCACG
Found at i:18333940 original size:40 final size:39
Alignment explanation
Indices: 18333716--18333940 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
18333706 GCTACTCGTT
*
18333716 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
18333756 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
18333796 CAAATGCCTTCGGACTTAGTCCGTATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18333835 CGAATGCCTTCGGATATTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
18333875 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18333916 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
18333941 CATCATTCGA
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 37 0.22
40 116 0.70
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18336135 original size:29 final size:29
Alignment explanation
Indices: 18336102--18336262 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
18336092 GTGACGAGAT
18336102 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
18336131 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18336160 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
18336189 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
18336218 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
18336247 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18336263 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18339746 original size:29 final size:29
Alignment explanation
Indices: 18339704--18339787 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
18339694 TGCCGTATTT
**
18339704 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
18339733 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
18339762 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
18339788 TCTCGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:18341127 original size:15 final size:15
Alignment explanation
Indices: 18341107--18341136 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18341097 AGGATGAGCA
*
18341107 TTCTTTTTTTTTCTT
1 TTCTTTTTCTTTCTT
18341122 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
18341137 GGCCGGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTTTTCTTTCTT
Found at i:18346785 original size:29 final size:29
Alignment explanation
Indices: 18346752--18346912 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
18346742 GTGACGAGAT
18346752 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
18346781 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18346810 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
18346839 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
18346868 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
18346897 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18346913 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18355235 original size:40 final size:39
Alignment explanation
Indices: 18355075--18355237 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
18355065 TGTGTATGAA
*
18355075 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
18355114 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18355153 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18355192 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
18355232 TGTGCG
1 TGTGCG
18355238 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:18355253 original size:40 final size:39
Alignment explanation
Indices: 18355075--18355268 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
18355065 TGTGTATGAA
* *
18355075 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
18355114 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18355153 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18355192 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
18355232 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
18355269 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:18363154 original size:40 final size:39
Alignment explanation
Indices: 18362994--18363156 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
18362984 TGTGTATGAA
*
18362994 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
18363033 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18363072 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18363111 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
18363151 TGTGCG
1 TGTGCG
18363157 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:18363172 original size:40 final size:39
Alignment explanation
Indices: 18362994--18363187 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
18362984 TGTGTATGAA
* *
18362994 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
18363033 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18363072 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18363111 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
18363151 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
18363188 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:18365476 original size:15 final size:15
Alignment explanation
Indices: 18365456--18365485 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18365446 CATATTCAAA
*
18365456 CCATCATTTTACCTT
1 CCATCATTCTACCTT
18365471 CCATCATTCTACCTT
1 CCATCATTCTACCTT
18365486 ATCAAGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (15 bp):
CCATCATTCTACCTT
Found at i:18366246 original size:50 final size:50
Alignment explanation
Indices: 18366167--18366279 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
18366157 GTACATGTAT
* * *
18366167 GCTCATATGAGCT-ATGAATCGGTATGCTCTCACGAGCTGGAAATCAGTAG
1 GCTCATATGAGTTGATGAATCGGTAAGCTCTCACGAGCT-GAAATCAGTAA
* * *
18366217 GCTCATATGAGTTGA-GAATTGGTAAGCTCTTATGAGCTGAAATCAGTAA
1 GCTCATATGAGTTGATGAATCGGTAAGCTCTCACGAGCTGAAATCAGTAA
*
18366266 GCTCATACGAGTTG
1 GCTCATATGAGTTG
18366280 TGGTGTGTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
49 23 0.42
50 31 0.56
51 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (50 bp):
GCTCATATGAGTTGATGAATCGGTAAGCTCTCACGAGCTGAAATCAGTAA
Found at i:18366251 original size:25 final size:24
Alignment explanation
Indices: 18366206--18366279 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
18366196 TCACGAGCTG
*
18366206 GAAATCAGTAGGCTCATATGAGTT
1 GAAATCAGTAAGCTCATATGAGTT
** * *
18366230 GAGAATTGGTAAGCTCTTATGAGCT
1 GA-AATCAGTAAGCTCATATGAGTT
*
18366255 GAAATCAGTAAGCTCATACGAGTT
1 GAAATCAGTAAGCTCATATGAGTT
18366279 G
1 G
18366280 TGGTGTGTCT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (24 bp):
GAAATCAGTAAGCTCATATGAGTT
Found at i:18366278 original size:49 final size:50
Alignment explanation
Indices: 18366182--18366279 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
18366172 TATGAGCTAT
* * *
18366182 GAATCGGTATGCTCTCACGAGCTGGAAATCAGTAGGCTCATATGAGTTGA
1 GAATCGGTAAGCTCTCACGAGCTGGAAATCAGTAAGCTCATACGAGTTGA
* * *
18366232 GAATTGGTAAGCTCTTATGAGCT-GAAATCAGTAAGCTCATACGAGTTG
1 GAATCGGTAAGCTCTCACGAGCTGGAAATCAGTAAGCTCATACGAGTTG
18366280 TGGTGTGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 23 0.55
50 19 0.45
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGGAAATCAGTAAGCTCATACGAGTTGA
Found at i:18366354 original size:33 final size:33
Alignment explanation
Indices: 18366317--18366384 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
18366307 ACAACCAAAT
18366317 TGGTAACCCTAATGACATGTCATTTGTATCCTA
1 TGGTAACCCTAATGACATGTCATTTGTATCCTA
18366350 TGGTAACCCTAATGACATGTCATTTGTATCCTA
1 TGGTAACCCTAATGACATGTCATTTGTATCCTA
18366383 TG
1 TG
18366385 TATTCCTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (33 bp):
TGGTAACCCTAATGACATGTCATTTGTATCCTA
Found at i:18370440 original size:13 final size:13
Alignment explanation
Indices: 18370422--18370447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18370412 TGAAACATTT
18370422 TAAATAATCAAAC
1 TAAATAATCAAAC
18370435 TAAATAATCAAAC
1 TAAATAATCAAAC
18370448 ATATTATTTC
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAATCAAAC
Found at i:18371149 original size:16 final size:16
Alignment explanation
Indices: 18371112--18371162 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18371102 ACGTAGCATT
*
18371112 ATAACCAAAAT-AAAC
1 ATAACCAAATTCAAAC
* *
18371127 TTAAACCATATTCAAAC
1 AT-AACCAAATTCAAAC
*
18371144 ATAACCAAATTCAAGC
1 ATAACCAAATTCAAAC
18371160 ATA
1 ATA
18371163 GAAGTTAAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.79
17 5 0.18
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAACCAAATTCAAAC
Found at i:18371559 original size:2 final size:2
Alignment explanation
Indices: 18371554--18371583 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18371544 ACACACACAC
18371554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18371584 CAAAGTATCT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18372047 original size:45 final size:45
Alignment explanation
Indices: 18372010--18372173 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
18372000 GCCGATGTCT
* *
18372010 CAAACATGGTCTTACACGTAACCACATATATCGATGCCAACGTTC
1 CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTC
* * *
18372055 CAGACATGGTCTTACATGAAAACACATATATCGATG-CAAGCGTCC
1 CAAACATGGTCTTACACGAAAACACATATATCGATGCCAA-CGTTC
*
18372100 CAAACGTGGTCTTACACGAAAACACATATATCGATGCCAACGTTC
1 CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTC
* **
18372145 CAGACATGGTCTTACATTAAAACACATAT
1 CAAACATGGTCTTACACGAAAACACATAT
18372174 CAGAATCCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 3 0.03
45 98 0.94
46 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTC
Found at i:18372126 original size:90 final size:90
Alignment explanation
Indices: 18372010--18372173 Score: 292
Period size: 90 Copynumber: 1.8 Consensus size: 90
18372000 GCCGATGTCT
* *
18372010 CAAACATGGTCTTACACGTAACCACATATATCGATGCCAACGTTCCAGACATGGTCTTACATGAA
1 CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTCCAGACATGGTCTTACATGAA
18372075 AACACATATATCGATGCAAGCGTCC
66 AACACATATATCGATGCAAGCGTCC
* *
18372100 CAAACGTGGTCTTACACGAAAACACATATATCGATGCCAACGTTCCAGACATGGTCTTACATTAA
1 CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTCCAGACATGGTCTTACATGAA
18372165 AACACATAT
66 AACACATAT
18372174 CAGAATCCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (90 bp):
CAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTTCCAGACATGGTCTTACATGAA
AACACATATATCGATGCAAGCGTCC
Found at i:18373052 original size:25 final size:26
Alignment explanation
Indices: 18373024--18373078 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
18373014 TTAATTTATG
18373024 TTATATT-ATAAAATATATTAACA-TA
1 TTATATTAATAAAATAT-TTAACATTA
* *
18373049 TTAT-TTAATTACATATTTAACATTA
1 TTATATTAATAAAATATTTAACATTA
18373074 TTATA
1 TTATA
18373079 AATATGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATATTAATAAAATATTTAACATTA
Found at i:18374144 original size:61 final size:61
Alignment explanation
Indices: 18374071--18374192 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
18374061 TCGAACTCGA
18374071 GAATGCAACATCTCAACATATCCTCAAGTATCTGAATGATTCGTTAGGATTTATCATCTGT
1 GAATGCAACATCTCAACATATCCTCAAGTATCTGAATGATTCGTTAGGATTTATCATCTGT
*
18374132 GAATGCAACATCTCAACATATCCTCAAGTATCTGAATGATTTGTTAGGATTTATCATCTGT
1 GAATGCAACATCTCAACATATCCTCAAGTATCTGAATGATTCGTTAGGATTTATCATCTGT
18374193 TTGTGATAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (61 bp):
GAATGCAACATCTCAACATATCCTCAAGTATCTGAATGATTCGTTAGGATTTATCATCTGT
Found at i:18374835 original size:17 final size:19
Alignment explanation
Indices: 18374807--18374841 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18374797 GCTATCAAAT
18374807 CATCATCAAATTT-TTGAG
1 CATCATCAAATTTATTGAG
18374825 CATCA-CAAATTTATTGA
1 CATCATCAAATTTATTGA
18374842 ACAAATAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
CATCATCAAATTTATTGAG
Found at i:18380258 original size:40 final size:40
Alignment explanation
Indices: 18380213--18380342 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
18380203 CGGAATATAA
18380213 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * * *
18380253 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGA
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
18380293 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
18380333 CCGGATATAA
1 CCGGATATAA
18380343 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 67 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:18380357 original size:40 final size:40
Alignment explanation
Indices: 18380229--18380380 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
18380219 ATAAGCATGT
* * * *
18380229 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCAC-CA
** * *
18380269 GCACGAA-TGCCTTCGGGTCTTAGA-CCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTA-ACCCGGATATAATCACCA
**
18380309 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* * * *
18380349 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
18380381 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 86 0.95
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
Found at i:18382624 original size:22 final size:22
Alignment explanation
Indices: 18382596--18382637 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18382586 CAAAACACGT
18382596 CATTTAT-CATACATACTTCATA
1 CATTTATGCATACATA-TTCATA
*
18382618 CATTTATGCATTCATATTCA
1 CATTTATGCATACATATTCA
18382638 AATACCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.43
Consensus pattern (22 bp):
CATTTATGCATACATATTCATA
Found at i:18388282 original size:56 final size:56
Alignment explanation
Indices: 18388222--18388432 Score: 332
Period size: 56 Copynumber: 3.8 Consensus size: 56
18388212 CCCCAGACAA
* * * *
18388222 GGTCTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGT
*
18388278 GGTCTTACTCGCACACATATATCGAAGTCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGT
* *
18388334 GGTCTTACTTGCACACATATATCGAAGTCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGT
* * *
18388390 GGACTTACTCGCACATATATATCGGAGTCACATATCGATGCCA
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCA
18388433 CATATACTTC
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 144 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:18389386 original size:14 final size:14
Alignment explanation
Indices: 18389367--18389393 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18389357 GCACGTTGTG
18389367 AAAATAAAAATAAT
1 AAAATAAAAATAAT
18389381 AAAATAAAAATAA
1 AAAATAAAAATAA
18389394 AATAAAGAAC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:18395245 original size:45 final size:45
Alignment explanation
Indices: 18395181--18395270 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
18395171 ATTCGTTGTG
18395181 GCAAATTAAGCTCTTTTCAACACTTAATGGGCTCGTGTTTATGTA
1 GCAAATTAAGCTCTTTTCAACACTTAATGGGCTCGTGTTTATGTA
18395226 GCAAATTAAGCTCTTTTCAACACTTAATGGGCTCGTGTTTATGTA
1 GCAAATTAAGCTCTTTTCAACACTTAATGGGCTCGTGTTTATGTA
18395271 ATTGTTAGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (45 bp):
GCAAATTAAGCTCTTTTCAACACTTAATGGGCTCGTGTTTATGTA
Found at i:18403123 original size:48 final size:48
Alignment explanation
Indices: 18403055--18403574 Score: 851
Period size: 48 Copynumber: 10.8 Consensus size: 48
18403045 CAAGATAAAT
* * * * *
18403055 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403103 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403151 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403199 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
18403247 ATATGTATATGTGGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATA--T-GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
18403298 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403346 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403394 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
18403442 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
18403490 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
18403538 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
18403575 TGTTGTAACA
Statistics
Matches: 439, Mismatches: 30, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
48 393 0.90
49 1 0.00
50 1 0.00
51 44 0.10
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:18403719 original size:37 final size:37
Alignment explanation
Indices: 18403619--18403721 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
18403609 GGAAATGTAT
*
18403619 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
18403656 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
18403693 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
18403722 GAACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:18418721 original size:46 final size:49
Alignment explanation
Indices: 18418470--18418791 Score: 233
Period size: 46 Copynumber: 6.8 Consensus size: 49
18418460 ATAAGGTGTA
* ** * * *
18418470 ATGCTGATGCCACATCCCAAACATGGTCTTACACTGGCTCATCCA--TC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCTCG
* * * * * * **
18418517 AAGTCGATGCCATGTCCCAAACATAGTCTTACACTAACTAT-CGAAATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAC-ATCTCG
* * * * * *
18418566 AGGTCGACGCCATGTCCCAAAGATGGTCTTACACTGGCTCTCACATCTCCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCT-CG
* *
18418617 -TGCCGATGCCATGTCCCAGACATGGTCTTACA-TAG-AC-ACATCTTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
* *
18418662 -TAGCCAATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TACATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
* * * *
18418708 AGGCCGATG-CATGTCCGAGACAT-GTCTTACACTAGCTCT-CGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
*
18418754 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
18418792 GCACAAATGA
Statistics
Matches: 222, Mismatches: 38, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
44 8 0.04
45 19 0.09
46 66 0.30
47 45 0.20
48 16 0.07
49 36 0.16
50 29 0.13
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
Found at i:18420222 original size:39 final size:39
Alignment explanation
Indices: 18420170--18420331 Score: 270
Period size: 39 Copynumber: 4.2 Consensus size: 39
18420160 GACTTTAGCT
* * * *
18420170 CGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
18420209 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTT
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
18420248 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAGGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
18420287 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
18420326 CGGATA
1 CGGATA
18420332 CACATCAAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:18424793 original size:27 final size:27
Alignment explanation
Indices: 18424735--18424800 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
18424725 GTTAATAAAA
* * *
18424735 AATAAAAATAATAATAATAATAATAGC
1 AATAAAAATAAAAATAAGAACAATAGC
* * *
18424762 TATAAAAATAAAAATAAGAACCATGGC
1 AATAAAAATAAAAATAAGAACAATAGC
18424789 AATAAAGAATAA
1 AATAAA-AATAA
18424801 TGGTAGTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (27 bp):
AATAAAAATAAAAATAAGAACAATAGC
Found at i:18426336 original size:24 final size:23
Alignment explanation
Indices: 18426303--18426348 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
18426293 GGGTCTAGGT
*
18426303 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTAGGTTTAGGGGTT-TTGGC
*
18426327 TTAGTGGGTTTAGGGGTTTTGG
1 TTAGTAGGTTTAGGGGTTTTGG
18426349 GCCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
TTAGTAGGTTTAGGGGTTTTGGC
Found at i:18426643 original size:21 final size:21
Alignment explanation
Indices: 18426619--18426684 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
18426609 TCCACTGAAA
18426619 CTTCAAGGAGATCCGCTGTAG
1 CTTCAAGGAGATCCGCTGTAG
* ** * * *
18426640 CTTCGATTA-ATCCACTGAAA
1 CTTCAAGGAGATCCGCTGTAG
**
18426660 CTTCAAGGAGATTTGCTGTAG
1 CTTCAAGGAGATCCGCTGTAG
18426681 CTTC
1 CTTC
18426685 GATTAATCTA
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (21 bp):
CTTCAAGGAGATCCGCTGTAG
Done.