Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 341 of 770
Found at i:104450546 original size:75 final size:76
Alignment explanation
Indices: 104450438--104450607 Score: 227
Period size: 75 Copynumber: 2.2 Consensus size: 76
104450428 GGCTCAAAGG
* * * * * *
104450438 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAACCTGGACATAATACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATACCAGCACGAAGCCT
104450503 GC-GGAATTAA
66 GCGGGAATTAA
* * *
104450513 CCCGGATATATTACCAGCACGAAGCCTGTGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATACCAGCACGAAGCCT
*
104450578 GCGGGATTTAA
66 GCGGGAATTAA
104450589 CCCGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
104450608 TATAGCCTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
75 58 0.70
76 22 0.27
77 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (76 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATACCAGCACGAAGCCT
GCGGGAATTAA
Found at i:104450976 original size:43 final size:43
Alignment explanation
Indices: 104450923--104451077 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
104450913 CCGGCATTAC
* *
104450923 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACGAA
*
104450966 GCCTGCTAGGCACAAAGGCCCAAATACACATCA-TCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACT-GGCACGAA
** * **
104451009 GCCTGCTAGGCACGAAGGCCTGAATACACGTCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACGAA
104451052 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCAAATA
104451078 TAATACCAGC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
42 1 0.01
43 98 0.99
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACGAA
Found at i:104451126 original size:38 final size:38
Alignment explanation
Indices: 104451075--104451239 Score: 235
Period size: 38 Copynumber: 4.4 Consensus size: 38
104451065 GAAGGCCCAA
* * * * *
104451075 ATATAATACCAGCACTAGGCCTGCGGGATTTAAACTGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
104451113 ATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
104451151 ATATATTA-CAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
104451188 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
104451226 ATATAATT-CCAGCA
1 ATAT-ATTACCAGCA
104451240 TATAGCCTAC
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 35 0.30
38 77 0.67
39 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:104451179 original size:75 final size:75
Alignment explanation
Indices: 104451070--104451239 Score: 232
Period size: 75 Copynumber: 2.2 Consensus size: 75
104451060 GGCACGAAGG
* * * * *
104451070 CCCAAATATAATACCAGCACTAGGCCTGCGGGATTTAAACTGGATATATTACCAGCACGAAGCCT
1 CCCAGATATATTA-CAGCACGAAGCCTGCGGGATTTAAACCGGATATATTACCAGCACGAAGCCT
104451135 GCGAGATTTAA
65 GCGAGATTTAA
* * *
104451146 CCCGGATATATTACAGCACGAAGCCTGTGGGATTTAACCCGGATATATTACCAGCACGAAGCCTG
1 CCCAGATATATTACAGCACGAAGCCTGCGGGATTTAAACCGGATATATTACCAGCACGAAGCCTG
*
104451211 CGGGATTTAA
66 CGAGATTTAA
*
104451221 CCCAGATATAATTCCAGCA
1 CCCAGATAT-ATTACAGCA
104451240 TATAGCCTAC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 64 0.78
76 18 0.22
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (75 bp):
CCCAGATATATTACAGCACGAAGCCTGCGGGATTTAAACCGGATATATTACCAGCACGAAGCCTG
CGAGATTTAA
Found at i:104456170 original size:30 final size:30
Alignment explanation
Indices: 104456134--104456263 Score: 160
Period size: 30 Copynumber: 4.5 Consensus size: 30
104456124 GACAAGATTG
* * *
104456134 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
104456164 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
104456192 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
104456222 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
104456251 GCACTAAGT-TGCG
1 GCACTAAGTGTGCG
104456264 GATTCACTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
28 27 0.30
29 15 0.16
30 49 0.54
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:104456225 original size:58 final size:58
Alignment explanation
Indices: 104456134--104456263 Score: 165
Period size: 58 Copynumber: 2.2 Consensus size: 58
104456124 GACAAGATTG
* * * * * *
104456134 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
104456192 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
104456251 GCACTAAGT-TGCG
1 GCACTAAGTGTGCG
104456264 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 45 0.71
59 16 0.25
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:104464168 original size:30 final size:30
Alignment explanation
Indices: 104464132--104464262 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
104464122 GACAAGATTG
* * * * *
104464132 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
104464162 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
104464190 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104464220 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104464249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104464263 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:104464223 original size:58 final size:58
Alignment explanation
Indices: 104464132--104464262 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
104464122 GACAAGATTG
* * * * * *
104464132 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
104464190 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
104464249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104464263 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:104466742 original size:28 final size:28
Alignment explanation
Indices: 104466689--104466742 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
104466679 GTAAAATGAC
* * *
104466689 CTTGATGGATTTCCTATTGTATGATAGT
1 CTTGATGGACTTCCCATTGTACGATAGT
104466717 CTTGATGGACTTCCACATT-TACGATA
1 CTTGATGGACTTCC-CATTGTACGATA
104466743 ACATCATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 19 0.86
29 3 0.14
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (28 bp):
CTTGATGGACTTCCCATTGTACGATAGT
Found at i:104468055 original size:50 final size:50
Alignment explanation
Indices: 104467980--104468080 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
104467970 GCTTCGAGTG
104467980 TGGGCCCGAATCAATTGAATCAAAACACAGAACTAGAAAAAGTTTTCTTT
1 TGGGCCCGAATCAATTGAATCAAAACACAGAACTAGAAAAAGTTTTCTTT
104468030 TGGGCCCGAATCAATTGAATCAAAACACAGAACTAGAAAAAGTTTTCTTT
1 TGGGCCCGAATCAATTGAATCAAAACACAGAACTAGAAAAAGTTTTCTTT
104468080 T
1 T
104468081 CTTTTTGGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (50 bp):
TGGGCCCGAATCAATTGAATCAAAACACAGAACTAGAAAAAGTTTTCTTT
Found at i:104468739 original size:6 final size:6
Alignment explanation
Indices: 104468721--104468769 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
104468711 TGCAAATGTA
* * *
104468721 TCATTT CTCATTT TCATTT CCATTT TCATTT CCATTT TCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
104468770 AGAGAAACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:104468746 original size:12 final size:12
Alignment explanation
Indices: 104468721--104468769 Score: 89
Period size: 12 Copynumber: 4.0 Consensus size: 12
104468711 TGCAAATGTA
104468721 TCATTTCTCATTT
1 TCATTTC-CATTT
104468734 TCATTTCCATTT
1 TCATTTCCATTT
104468746 TCATTTCCATTT
1 TCATTTCCATTT
104468758 TCATTTCCATTT
1 TCATTTCCATTT
104468770 AGAGAAACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 29 0.81
13 7 0.19
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:104470925 original size:18 final size:18
Alignment explanation
Indices: 104470904--104470942 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
104470894 CAAATTAAAT
104470904 AGAAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAAGAGAA
* * *
104470922 AGAAAGAAAAGAGGAGAA
1 AGAAAAAAAAAAAGAGAA
104470940 AGA
1 AGA
104470943 CGCACGACTA
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAGAGAA
Found at i:104473638 original size:28 final size:28
Alignment explanation
Indices: 104473598--104473656 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
104473588 AAGTAATACG
*
104473598 TACCTGAACATTTTAAATATATAGTACT
1 TACCTAAACATTTTAAATATATAGTACT
*
104473626 TACCTAAACATTTTAAATGTATAGTACT
1 TACCTAAACATTTTAAATATATAGTACT
104473654 TAC
1 TAC
104473657 TCGACGATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (28 bp):
TACCTAAACATTTTAAATATATAGTACT
Found at i:104473839 original size:39 final size:40
Alignment explanation
Indices: 104473744--104473974 Score: 208
Period size: 39 Copynumber: 5.9 Consensus size: 40
104473734 ACTTGAAACC
** * *
104473744 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
104473783 AATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * * *
104473822 ATTTTCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
104473861 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
104473900 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
104473939 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
104473975 TATACATCAC
Statistics
Matches: 170, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 17 0.10
39 153 0.90
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:104473863 original size:78 final size:79
Alignment explanation
Indices: 104473796--104473974 Score: 256
Period size: 78 Copynumber: 2.3 Consensus size: 79
104473786 ACCAGCTCGA
* * * * * *
104473796 AGCCTGCGGGA-CTTTAGCCCGGACATATTTTCAGCACGTAGCCTGCGGACCTTAAGTCCGGATA
1 AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
104473860 TAATTCCAGCACAT
66 TAATTCCAGCACAT
* *
104473874 AGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
1 AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
104473938 TAATTCCAGCACAT
66 TAATTCCAGCACAT
*
104473952 AGCCTGC-GGACCCTAAGTCCGGA
1 AGCCTGCGGGACCCTAAGCCCGGA
104473975 TATACATCAC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 3 0.03
78 89 0.97
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (79 bp):
AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
TAATTCCAGCACAT
Found at i:104473975 original size:39 final size:39
Alignment explanation
Indices: 104473827--104473978 Score: 286
Period size: 39 Copynumber: 3.9 Consensus size: 39
104473817 GACATATTTT
* *
104473827 CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
104473866 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
104473905 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
104473944 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
104473979 CATCACTGAA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (39 bp):
CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
Found at i:104476133 original size:17 final size:18
Alignment explanation
Indices: 104476091--104476139 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
104476081 AGTTGAAAAG
104476091 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
104476110 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
104476127 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
104476140 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:104477027 original size:40 final size:40
Alignment explanation
Indices: 104476961--104477127 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
104476951 AAATTGAATG
* * *
104476961 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
104477000 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
104477040 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
104477080 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
104477120 ATATCCGG
1 ATATCCGG
104477128 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:104484138 original size:17 final size:18
Alignment explanation
Indices: 104484096--104484144 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
104484086 AGTTGAAAAG
104484096 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
104484115 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
104484132 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
104484145 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:104485032 original size:40 final size:40
Alignment explanation
Indices: 104484966--104485116 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
104484956 AAATTGAATG
* * *
104484966 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
104485005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
104485045 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
104485085 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
104485117 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:104485130 original size:40 final size:40
Alignment explanation
Indices: 104485002--104485132 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
104484992 TATGCTGGAA
* * * *
104485002 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
104485042 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
104485082 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
104485122 ATTATATCCGG
1 ATTATATCCGG
104485133 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:104487800 original size:40 final size:40
Alignment explanation
Indices: 104487756--104487850 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
104487746 CACGGGTTTG
* * *
104487756 CTCACACAAGCTATCGGTTAGGATGTAGCTACACAGGCTA
1 CTCACACAAGCTATCGGTCAGGACGTAGCTACACAGACTA
*
104487796 CTCACACAAGCTATCGGTCAGGACGTAGCTACACAGACTG
1 CTCACACAAGCTATCGGTCAGGACGTAGCTACACAGACTA
104487836 CTCACACAAGCTATC
1 CTCACACAAGCTATC
104487851 TGGTATTCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (40 bp):
CTCACACAAGCTATCGGTCAGGACGTAGCTACACAGACTA
Found at i:104491022 original size:9 final size:9
Alignment explanation
Indices: 104491010--104491048 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
104491000 TGAAATTTTC
104491010 AAAATCATA
1 AAAATCATA
104491019 AAAATCATA
1 AAAATCATA
* **
104491028 GACCTCATA
1 AAAATCATA
104491037 AAAATCATA
1 AAAATCATA
104491046 AAA
1 AAA
104491049 TAATTATTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAATCATA
Found at i:104497903 original size:39 final size:39
Alignment explanation
Indices: 104497859--104498127 Score: 439
Period size: 39 Copynumber: 6.9 Consensus size: 39
104497849 TACAAGTACA
* * *
104497859 AAGCCTGTGGGACTTTAACCCGGATACATTTCCCGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
104497898 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
104497937 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
104497976 AAGCCTGCGGGACTTTGGCCCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
104498015 AAGCCTGCGGGACTTTATCTCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
104498054 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
104498093 AAGCCTGCGGGACTTTAGCCCGAATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
104498128 TGTCTTGCAT
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 212 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:104504078 original size:39 final size:39
Alignment explanation
Indices: 104504024--104504178 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
104504014 AATGTGTGAA
*
104504024 TTGTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
104504063 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
104504102 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
104504141 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
104504179 GGTTACCATA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:104504194 original size:40 final size:40
Alignment explanation
Indices: 104504033--104504203 Score: 159
Period size: 39 Copynumber: 4.3 Consensus size: 40
104504023 ATTGTGATAT
* *** *
104504033 CCGGGCTAAG-CCCAAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
104504072 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
104504111 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
104504150 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
104504190 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
104504204 AAAGACGTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.70
40 35 0.30
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:104513917 original size:80 final size:80
Alignment explanation
Indices: 104513833--104513981 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
104513823 TATGGTAACC
* * * *
104513833 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
104513897 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
104513913 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
104513978 CCGG
66 CCGG
104513982 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:104513923 original size:40 final size:38
Alignment explanation
Indices: 104513874--104513981 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
104513864 ATCACGATTT
*
104513874 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
104513914 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
104513954 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
104513982 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:104519101 original size:17 final size:17
Alignment explanation
Indices: 104519079--104519113 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
104519069 AAGTGCATCT
104519079 GGAGAGGCAGCATCCTC
1 GGAGAGGCAGCATCCTC
104519096 GGAGAGGCAGCATCCTC
1 GGAGAGGCAGCATCCTC
104519113 G
1 G
104519114 CGTGCGCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.37, T:0.11
Consensus pattern (17 bp):
GGAGAGGCAGCATCCTC
Found at i:104522261 original size:39 final size:39
Alignment explanation
Indices: 104522154--104522261 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
104522144 ATAACCACGT
* *
104522154 GCACAAATGCCTTCGGGTCTTAGCCCGGAAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGAATGACTA
* *
104522193 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-GCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGAATG--ACTA
*
104522233 GCAC-AATGCCTTCGGGTCTTAACCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
104522262 ATAATTTCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.02
39 54 0.87
40 7 0.11
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGAATGACTA
Found at i:104527168 original size:40 final size:39
Alignment explanation
Indices: 104527124--104527252 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
104527114 GACTCGCTCA
*
104527124 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
104527163 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
104527203 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
104527241 GAATGCCTTCGG
1 -AATGCCTTCGG
104527253 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:104527252 original size:78 final size:80
Alignment explanation
Indices: 104527159--104527305 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
104527149 ATAGCGACTT
* * *
104527159 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
104527221 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
104527237 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
104527302 CGGA
66 CGGA
104527306 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:104527289 original size:40 final size:37
Alignment explanation
Indices: 104527140--104527305 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
104527130 TTCGGGACGA
* ** *
104527140 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
104527180 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
104527218 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
104527258 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
104527298 AGCCCGGA
1 AGCCCGGA
104527306 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:104535245 original size:40 final size:39
Alignment explanation
Indices: 104535201--104535329 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
104535191 GACTCGCTCA
*
104535201 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
104535240 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
104535280 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
104535318 GAATGCCTTCGG
1 -AATGCCTTCGG
104535330 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:104535329 original size:78 final size:80
Alignment explanation
Indices: 104535236--104535382 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
104535226 ATAGCGACTT
* * *
104535236 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
104535298 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
104535314 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
104535379 CGGA
66 CGGA
104535383 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:104535366 original size:40 final size:37
Alignment explanation
Indices: 104535217--104535382 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
104535207 TTCGGGACGA
* ** *
104535217 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
104535257 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
104535295 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
104535335 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
104535375 AGCCCGGA
1 AGCCCGGA
104535383 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:104542058 original size:40 final size:40
Alignment explanation
Indices: 104542014--104542163 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
104542004 ATAACCACAA
104542014 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
104542054 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
* * *** *
104542094 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
*
104542134 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
104542164 ATAATCACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
Found at i:104542164 original size:40 final size:40
Alignment explanation
Indices: 104541998--104542200 Score: 205
Period size: 40 Copynumber: 5.1 Consensus size: 40
104541988 CGGGATTCAA
* * *
104541998 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
104542038 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
104542078 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
104542118 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
104542158 CCGGATATAATC-ACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
104542197 CCGG
1 CCGG
104542201 GTATCATTCA
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.10
40 127 0.88
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:104542185 original size:80 final size:80
Alignment explanation
Indices: 104541998--104542200 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
104541988 CGGGATTCAA
* * * * *** *
104541998 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTG
104542063 CCTTCGGGTCTTAAC
66 CCTTCGGGTCTTAAC
* ** * *
104542078 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-T
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AATT
*
104542142 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAAC
* * *
104542158 CCGGATATAATCACTAGCATAAATGCCTTC-GGACTTAGCCCGG
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGG
104542201 GTATCATTCA
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
79 12 0.12
80 86 0.86
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTG
CCTTCGGGTCTTAAC
Found at i:104548981 original size:29 final size:29
Alignment explanation
Indices: 104548948--104549050 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
104548938 GTGACGAGAT
104548948 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
104548977 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
104549006 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
104549035 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
104549051 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:104556935 original size:29 final size:29
Alignment explanation
Indices: 104556902--104557004 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
104556892 GTGACGAGAT
104556902 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
104556931 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
104556960 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
104556989 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
104557005 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:104561323 original size:40 final size:40
Alignment explanation
Indices: 104561279--104561428 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
104561269 ATAACCACAA
104561279 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
104561319 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
* * *** *
104561359 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
*
104561399 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
104561429 ATAATCACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
Found at i:104561429 original size:40 final size:40
Alignment explanation
Indices: 104561263--104561466 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
104561253 CGGGATTCAA
* * *
104561263 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
104561303 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
104561343 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
104561383 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
104561423 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
104561463 CCGG
1 CCGG
104561467 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 140 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:104567255 original size:46 final size:48
Alignment explanation
Indices: 104567202--104567322 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 48
104567192 TGATATGTGT
* *
104567202 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCCACA-TTA-AGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGAGCCACAGATATACA-A
* * * *
104567248 GCTAGTGTAAAACATGTCTGGGACATGCATCGATCTAGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGAGCCACAGATATACAA
*
104567296 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
104567323 GCGTCAGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 30 0.47
47 4 0.06
48 28 0.44
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGAGCCACAGATATACAA
Found at i:104567409 original size:49 final size:49
Alignment explanation
Indices: 104567342--104567470 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
104567332 TGTTGTGTGT
* * * * *
104567342 CAGTCTAAGACATGTCTGGGGCATGGCATC-GACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAG-C-CTCGATAGATGAAAGC
** * * *
104567391 CAGTGTAAGACCTATCTGGGACACAGCATCAGCCTCTATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATAGATGAAAGC
104567440 CAGTGTAAGACCTATCTGGGACATGGCATCA
1 CAGTGTAAGACCTATCTGGGACATGGCATCA
104567471 ACTTTGATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.02
49 64 0.97
50 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATAGATGAAAGC
Found at i:104575134 original size:47 final size:47
Alignment explanation
Indices: 104575033--104575394 Score: 557
Period size: 47 Copynumber: 7.7 Consensus size: 47
104575023 CAGTTCCACT
* * * *
104575033 TTCATCACATTGACCATTTGGCCTTAT--CATATATATACTTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
104575078 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
*
104575125 TTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACA
* * *
104575174 TTCATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
104575221 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
* * * *
104575268 TTCATCACATTGGCCATTCGGCCTTATCATATATAAATACTTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
* *
104575315 TTCATCACATTGGCCATTCGGCCTTATCACATACATACTCCTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
*
104575362 TTCATCACATTGGCCATTAGGCCTTATCACATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATA
104575395 TACATATCTT
Statistics
Matches: 290, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 25 0.09
47 220 0.76
49 45 0.16
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACA
Found at i:104591985 original size:31 final size:31
Alignment explanation
Indices: 104591947--104592010 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
104591937 CCTTTTCATA
104591947 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
104591978 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
104592009 TT
1 TT
104592011 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:104592253 original size:24 final size:24
Alignment explanation
Indices: 104592202--104592344 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
104592192 GCTTTATCAT
*
104592202 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
104592227 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
104592251 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
104592274 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104592298 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104592322 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104592345 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104592281 original size:47 final size:48
Alignment explanation
Indices: 104592202--104592343 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
104592192 GCTTTATCAT
* *
104592202 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
104592251 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
104592298 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
104592344 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:104592302 original size:71 final size:72
Alignment explanation
Indices: 104592201--104592344 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
104592191 TGCTTTATCA
*
104592201 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
104592266 GCCCTTT
66 GCCCTTT
* * **
104592273 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
104592336 AGCCCTTT
65 AGCCCTTT
104592344 T
1 T
104592345 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:104592425 original size:11 final size:11
Alignment explanation
Indices: 104592395--104592448 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104592385 TATGATTACC
104592395 TCATGTGCATA
1 TCATGTGCATA
*
104592406 TCA--TACATA
1 TCATGTGCATA
104592415 TCATGTGCATA
1 TCATGTGCATA
*
104592426 TCA--TACAT-
1 TCATGTGCATA
104592434 TCATGTGCATA
1 TCATGTGCATA
104592445 TCAT
1 TCAT
104592449 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104592439 original size:19 final size:20
Alignment explanation
Indices: 104592395--104592453 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
104592385 TATGATTACC
104592395 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104592415 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
104592434 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104592454 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104592528 original size:25 final size:25
Alignment explanation
Indices: 104592496--104592543 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104592486 ATACATAAAC
* * *
104592496 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104592521 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104592544 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104600079 original size:31 final size:31
Alignment explanation
Indices: 104600041--104600104 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
104600031 CCTTTTCATA
104600041 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
104600072 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
104600103 TT
1 TT
104600105 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:104600347 original size:24 final size:24
Alignment explanation
Indices: 104600296--104600438 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
104600286 GCTTTATCAT
*
104600296 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
104600321 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
104600345 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
104600368 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104600392 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104600416 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104600439 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104600375 original size:47 final size:48
Alignment explanation
Indices: 104600296--104600437 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
104600286 GCTTTATCAT
* *
104600296 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
104600345 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
104600392 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
104600438 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:104600396 original size:71 final size:72
Alignment explanation
Indices: 104600295--104600438 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
104600285 TGCTTTATCA
*
104600295 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
104600360 GCCCTTT
66 GCCCTTT
* * **
104600367 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
104600430 AGCCCTTT
65 AGCCCTTT
104600438 T
1 T
104600439 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:104600519 original size:11 final size:11
Alignment explanation
Indices: 104600489--104600542 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104600479 TATGATTACC
104600489 TCATGTGCATA
1 TCATGTGCATA
*
104600500 TCA--TACATA
1 TCATGTGCATA
104600509 TCATGTGCATA
1 TCATGTGCATA
*
104600520 TCA--TACAT-
1 TCATGTGCATA
104600528 TCATGTGCATA
1 TCATGTGCATA
104600539 TCAT
1 TCAT
104600543 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104600533 original size:19 final size:20
Alignment explanation
Indices: 104600489--104600547 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
104600479 TATGATTACC
104600489 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104600509 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
104600528 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104600548 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104600622 original size:25 final size:25
Alignment explanation
Indices: 104600590--104600637 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104600580 ATACATAAAC
* * *
104600590 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104600615 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104600638 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104606276 original size:68 final size:70
Alignment explanation
Indices: 104606204--104606401 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
104606194 ACACCCTGTA
* * * *
104606204 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
104606266 ATAAAT
65 ATAAAT
*
104606272 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
104606337 ATAAAT
65 ATAAAT
*
104606343 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
104606402 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:104606315 original size:41 final size:41
Alignment explanation
Indices: 104606270--104606387 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
104606260 TGAAAGATAA
104606270 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
104606311 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104606341 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104606382 ATGTAG
1 ATGTAG
104606388 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:104606327 original size:71 final size:71
Alignment explanation
Indices: 104606238--104606401 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104606228 GAGATGTATC
104606238 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104606303 AGGACA
66 AGGACA
104606309 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104606374 AGGACA
66 AGGACA
104606380 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
104606402 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:104610100 original size:28 final size:28
Alignment explanation
Indices: 104610068--104610166 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
104610058 GCCATAAGCC
*
104610068 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
104610096 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
104610124 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
104610153 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104610167 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:104614199 original size:39 final size:40
Alignment explanation
Indices: 104614038--104614201 Score: 153
Period size: 39 Copynumber: 4.2 Consensus size: 40
104614028 AAATTGAATG
* * **
104614038 ATATCCGGGCTAAG--CCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
104614076 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
*
104614116 AT-TCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
104614155 CTATCCGGGCTAAGA-CCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
104614194 ATATCCGG
1 ATATCCGG
104614202 TTATATTCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 17 0.17
39 53 0.52
40 32 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:104622082 original size:40 final size:40
Alignment explanation
Indices: 104622016--104622181 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
104622006 AAATTGAATG
* * *
104622016 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
104622055 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
104622095 AT-TCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
104622134 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
104622174 ATATCCGG
1 ATATCCGG
104622182 TTATATTCCG
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.40
40 57 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:104622101 original size:39 final size:40
Alignment explanation
Indices: 104622056--104622165 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
104622046 CTGGAAATTA
* *
104622056 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
104622094 TATTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TA-TCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
104622135 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
104622166 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.42
40 26 0.42
41 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:104629532 original size:29 final size:29
Alignment explanation
Indices: 104629391--104629520 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
104629381 GACAAGATTG
* * * *
104629391 GCACTAAGTGTGCGGGTTTAAAATTGTATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
104629421 GCACTAAGTGTGCGAGTTTG--ATTCTATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
104629449 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
104629478 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
104629507 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104629521 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:104638405 original size:27 final size:27
Alignment explanation
Indices: 104638357--104638440 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
104638347 GTGAGACTGC
* * *
104638357 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
* *
104638384 CAGATATTGTGGCTAGGCCACCAGAATA
1 CAGATATTGTGGCAAAGCCACCAG-ATA
*
104638412 GATGTATATATGTGGCAAAGCCACCAGAT
1 CA-G-ATAT-TGTGGCAAAGCCACCAGAT
104638441 TGCAGTGAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 20 0.43
28 4 0.09
29 1 0.02
30 6 0.13
31 15 0.33
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:104643447 original size:49 final size:49
Alignment explanation
Indices: 104643275--104643470 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
104643265 TAGTCAAAGC
* * * *
104643275 TATCTGGTACGCATAGTAGCCTACACTTAGTACTGCACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
104643325 CATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * *
104643376 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
104643425 TATCTGGTACACGTAGTAGCCTGCAATTTGTACTACACATGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
104643471 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 41 0.34
50 42 0.35
51 37 0.31
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:104645167 original size:44 final size:41
Alignment explanation
Indices: 104645117--104645219 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 41
104645107 GAAGCTATAA
*
104645117 AATATCGTACACTTAGTGCCATCATATTAAACCAAAGCTA-TCTC
1 AATATCGCACACTTAGTGCCA-CATA-T-AACCAAAGCTATTC-C
* *
104645161 AATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTCC
1 AATATCGCACACTTAGTGCCACATATAACCAAAGCTATTCC
104645202 AAT-TCGCACACTTAGTGC
1 AATATCGCACACTTAGTGC
104645220 TACTTATAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 15 0.27
41 13 0.24
42 3 0.05
43 4 0.07
44 20 0.36
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
AATATCGCACACTTAGTGCCACATATAACCAAAGCTATTCC
Found at i:104645217 original size:40 final size:42
Alignment explanation
Indices: 104645117--104645243 Score: 145
Period size: 40 Copynumber: 3.0 Consensus size: 42
104645107 GAAGCTATAA
* * *
104645117 AATATCGTACACTTAGTGCCATCATATTAAACCAAAGCTA-TCTC
1 AATATCGCACACTTAGTGCCA-CATA-T-AGCCGAAGCTATTCTC
104645161 AATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTC-C
1 AATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTCTC
* * *
104645202 AAT-TCGCACACTTAGTGCTACTTATAGCCGAAGTTATT-TC
1 AATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTCTC
104645242 AA
1 AA
104645244 ATGCCAAACA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
40 35 0.47
41 13 0.17
42 3 0.04
43 4 0.05
44 20 0.27
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (42 bp):
AATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTCTC
Found at i:104651314 original size:159 final size:159
Alignment explanation
Indices: 104651141--104651448 Score: 437
Period size: 160 Copynumber: 1.9 Consensus size: 159
104651131 AAAATTAAAG
* *
104651141 TTTTCTTTAGAAAAA-TCACTACTTTTCTTAAAAAATC-AAAGTTTTATTTCGAAATAGTTGAAA
1 TTTTCTTTAGAAAAAGTCACTACTTTTCTT-AAAAATCAAAACTTTTATTTCGAAATAGTAGAAA
* * *
104651204 AAGATCAAAATTTTGTTTTAAAAAAATTAAACTTTTGCTTCAAAACGACTAA-AAAA-AATATTT
65 AAAATCAAAACTTTGTTTT-AAAAAATTAAAC-TTTCCTTCAAAACGACTAATAAAACAA-ATTT
104651267 TTATTTCTAAAAATCTAAACTTTCTCCTTTTTT
127 TTATTTCTAAAAATCTAAACTTTCTCCTTTTTT
*
104651300 TTTTCTTTTA-AAAAAGTCACTACTTTTCTTAAAGATCAAAACTTTTATTTCGAAATAGTAGAAA
1 TTTTC-TTTAGAAAAAGTCACTACTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTAGAAA
* * *
104651364 AAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAATAAAACAAATTTTTA
65 AAAATCAAAACTTTGTTTTAAAAAATTAAACTTTCCTTCAAAACGACTAATAAAACAAATTTTTA
* *
104651429 TTTTTAAAAATCTGAACTTT
130 TTTCTAAAAATCTAAACTTT
104651449 TTATTTTTAA
Statistics
Matches: 133, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
158 16 0.12
159 56 0.42
160 61 0.46
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.41
Consensus pattern (159 bp):
TTTTCTTTAGAAAAAGTCACTACTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTAGAAAA
AAATCAAAACTTTGTTTTAAAAAATTAAACTTTCCTTCAAAACGACTAATAAAACAAATTTTTAT
TTCTAAAAATCTAAACTTTCTCCTTTTTT
Found at i:104651455 original size:22 final size:23
Alignment explanation
Indices: 104651423--104651480 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
104651413 ATAAAACAAA
*
104651423 TTTTTATTTTTAAAAATCTGAAC
1 TTTTTATTTTTAAAAATCTAAAC
104651446 TTTTTATTTTTAAAAATCTAAAC
1 TTTTTATTTTTAAAAATCTAAAC
*
104651469 TTTCTTTTTTTT
1 TTT-TTATTTTT
104651481 TTCCTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTATTTTTAAAAATCTAAAC
Found at i:104651542 original size:104 final size:103
Alignment explanation
Indices: 104651452--104651648 Score: 260
Period size: 104 Copynumber: 1.9 Consensus size: 103
104651442 GAACTTTTTA
104651452 TTTTT-AAAAATCTAAACTTTCT-T-TTTTTTTTCCTTAAAAAAATATCACT-TTC-CTTAAAGA
1 TTTTTAAAAAATCTAAACTTTCTCTCTTTTTTTT-CTT-AAAAAAT-TCACTATTCGCTTAAAGA
*
104651512 TCAAAGTTTTTATTTCGAAATAGTTAAAAAAATCAACACCT
63 TCAAAGCTTTTATTTCGAAATAGTTAAAAAAATCAACACCT
* * * *
104651553 TTTTTAAAAAATCTAAAGTTTCTCTCTTTTTTTTCTTCAAAAATTCAGTACTTCGGTTAAAGATC
1 TTTTTAAAAAATCTAAACTTTCTCTCTTTTTTTTCTTAAAAAATTCACTA-TTCGCTTAAAGATC
*
104651618 AAAGCTTTTATTTTGAAATAGTTGAAAAAAA
65 AAAGCTTTTATTTCGAAATAGTT-AAAAAAA
104651649 ATAAAAACTT
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
101 9 0.11
102 22 0.27
103 7 0.08
104 38 0.46
105 7 0.08
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (103 bp):
TTTTTAAAAAATCTAAACTTTCTCTCTTTTTTTTCTTAAAAAATTCACTATTCGCTTAAAGATCA
AAGCTTTTATTTCGAAATAGTTAAAAAAATCAACACCT
Found at i:104652660 original size:41 final size:41
Alignment explanation
Indices: 104652568--104652673 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
104652558 CTTAATGTAC
104652568 AATGCAATGAAAAGTAAATGGATCTCCACACTTAAGCCTCTA
1 AATGCAATGAAAAGTAAATGGA-CTCCACACTTAAGCCTCTA
*
104652610 AATGCAATGAAAAGTAAATGGACATCCACAC-TAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGAC-TCCACACTTAAGCCTCTA
*
104652651 GATGCAATGAAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGGAC
104652674 CTACACGCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
41 32 0.52
42 29 0.48
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (41 bp):
AATGCAATGAAAAGTAAATGGACTCCACACTTAAGCCTCTA
Found at i:104653161 original size:17 final size:17
Alignment explanation
Indices: 104653112--104653161 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
104653102 CTCTCTCTAA
*
104653112 TTTTTCTTCTTTTTTGG
1 TTTTTTTTCTTTTTTGG
*
104653129 TTTCTTTTTCTGTTTT-G
1 TTT-TTTTTCTTTTTTGG
104653146 TTGTTTTTTCTTTTTT
1 TT-TTTTTTCTTTTTT
104653162 TTTCTTGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTGG
Found at i:104660032 original size:16 final size:16
Alignment explanation
Indices: 104660011--104660042 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104660001 GTAACGCCCC
104660011 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
*
104660027 AAAAATCTTGAAATCT
1 AAAAATCTCGAAATCT
104660043 TGAATTTTTT
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:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATCTCGAAATCT
Found at i:104661332 original size:19 final size:20
Alignment explanation
Indices: 104661308--104661345 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
104661298 GGTATCACCA
104661308 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
104661327 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
104661346 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:104662059 original size:30 final size:30
Alignment explanation
Indices: 104662025--104662081 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
104662015 ATTTAATACG
104662025 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
104662055 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
104662082 TAAGCTCGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:104664212 original size:29 final size:27
Alignment explanation
Indices: 104664165--104664276 Score: 100
Period size: 29 Copynumber: 4.0 Consensus size: 27
104664155 TGAGTATAAT
* *
104664165 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTGGGCCATATGA
*
104664192 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAGTGGGCCATATG-A
*
104664222 TATGAATTGGGCC-AGATGGGCCATTTGA
1 -ATGAATTGGGCCTAG-TGGGCCATATGA
* * *
104664250 ATAAGATTAGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
104664277 CATGTATGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.06
28 19 0.28
29 44 0.64
30 1 0.01
31 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTGGGCCATATGA
Found at i:104667276 original size:23 final size:23
Alignment explanation
Indices: 104667221--104667269 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
104667211 TATGAAGTTC
*
104667221 ATTAAATTGGTATAATCATATGA
1 ATTAAATTGGTATAAACATATGA
104667244 ATTAAATTGGTATAAACATATGA
1 ATTAAATTGGTATAAACATATGA
104667267 ATT
1 ATT
104667270 GTGTTGGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (23 bp):
ATTAAATTGGTATAAACATATGA
Found at i:104672441 original size:48 final size:48
Alignment explanation
Indices: 104672383--104672649 Score: 290
Period size: 48 Copynumber: 5.5 Consensus size: 48
104672373 TGTGCTAGCA
* *
104672383 TAAGACCATGTCTAGGACATGGCATTGGCCACATTATGAGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTG
* *
104672431 TATGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTG
* * * * *
104672479 TAAAACCATGTCTGGGACATGGCATCGGCCTCAATATGCGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTG
* * * ** * *
104672527 TAAGACCATGTTTGGAACATGGCATCGG-CATTGTTAT-ATGTGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCCA-CATTATGA-GAGCCAGTG
* *
104672575 TAAGACCATGTCTGGGACATGGCA-TCGACACCGATGTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCCA-C-AT-TATGAGAGCCAGTG
104672625 TAAGACCATGT-TCGGGACATGGCAT
1 TAAGACCATGTCT-GGGACATGGCAT
104672650 AAGCATTTTA
Statistics
Matches: 181, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
47 2 0.01
48 144 0.80
49 2 0.01
50 32 0.18
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTG
Found at i:104674046 original size:2 final size:2
Alignment explanation
Indices: 104674039--104674066 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
104674029 TGCAATTACG
104674039 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
104674067 CATGTGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104674933 original size:40 final size:40
Alignment explanation
Indices: 104674883--104674967 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
104674873 CTTGATATAT
*
104674883 TATATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
104674923 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
104674963 TATAT
1 TATAT
104674968 CTGGGGTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:104674988 original size:40 final size:40
Alignment explanation
Indices: 104674883--104674991 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 40
104674873 CTTGATATAT
104674883 TATATATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATTCT-GCAGGCTTCGTGCTGGTAA
* * *
104674923 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAC
1 TATATATCCGGGTTAAATTCTGCAGGCTTCGTGCTGGTAA
* *
104674963 TATATCT-GGGGTTAAAGTTCTGCAGGCTT
1 TATATATCCGGGTTAAA-TTCTGCAGGCTT
104674992 TGAGCTAGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 8 0.13
40 51 0.85
41 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (40 bp):
TATATATCCGGGTTAAATTCTGCAGGCTTCGTGCTGGTAA
Found at i:104677523 original size:27 final size:27
Alignment explanation
Indices: 104677458--104677511 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
104677448 ACGGGCTTGT
104677458 GACTCTCCAAAATATGAAAATTTTCTA
1 GACTCTCCAAAATATGAAAATTTTCTA
104677485 GACTCTCCAAAATATGAAAATTTTCTA
1 GACTCTCCAAAATATGAAAATTTTCTA
104677512 AGTGTTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (27 bp):
GACTCTCCAAAATATGAAAATTTTCTA
Found at i:104682439 original size:40 final size:39
Alignment explanation
Indices: 104682318--104682441 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
104682308 TGTGTATGAA
104682318 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
104682357 TGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
104682396 TGTGCGAATTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
104682436 TGTGCG
1 TGTGCG
104682442 GGTTACCATA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 63 0.79
40 17 0.21
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:104684878 original size:48 final size:48
Alignment explanation
Indices: 104684807--104685123 Score: 316
Period size: 48 Copynumber: 6.6 Consensus size: 48
104684797 TGTGCTAGCA
* * *
104684807 TAAGACTATGTCTAGGACATGGCATTGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
**** * * * *
104684855 TAAGACCATGTCTGGGACATGGCATCGGTGTTGA-TATGTGTGCTAATG
1 TAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAGCCAGTG
*
104684903 TAAGACCATGTCTGGGACATGGCATCGGCCACATTAT-AGGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GAGCCAGTG
* * *** * * *
104684951 TAAGACCATGTCTGGGACTTGGCATCGTCGTTGA-TATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCCAGTG
*
104684999 TAAGAACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * * ** * *
104685047 TAAGACCATGTATGGGACAAGACATCGGCTTCAATATGCGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
104685095 TAAGACCATGTTTGGAACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
104685124 ATTGTTATAT
Statistics
Matches: 217, Mismatches: 46, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 213 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
Found at i:104684952 original size:96 final size:96
Alignment explanation
Indices: 104684788--104685256 Score: 461
Period size: 96 Copynumber: 5.0 Consensus size: 96
104684778 AAGAAATTTG
** * * *
104684788 GTTGATATGTGTGCTAGCATAAGACTATGTCTAGGACATGGCATTGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
104684853 TGTAAGACCATGTCTGGGACATGGCATCGGT
66 TGTAAGACCATGTCTGGGACATGGCATCGGT
* *
104684884 GTTGATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAT-AGGAGCTA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GAGCCA
*
104684948 GTGTAAGACCATGTCTGGGACTTGGCATC-GT
65 GTGTAAGACCATGTCTGGGACATGGCATCGGT
*
104684979 CGTTGATATGTGTGCTAGTGTAAGAACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCA
1 -GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCA
* * *
104685044 GTGTAAGACCATGTATGGGACAAGACATCGGCT
65 GTGTAAGACCATGTCTGGGACATGGCATCGG-T
** * * * * * ** * *
104685077 -TCAATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CATTGTTAT-ATGTGTC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGA-GAGCC
* *
104685139 AGTGTAAGA-CA--ACAT-GG-CATCGACAT---T
64 AGTGTAAGACCATGTC-TGGGACAT-GGCATCGGT
* *
104685166 GTT-ATATATGT--TAGTGTAAGACCATGTCTGGGACATGGCATC-GACACCGATGTATGAGAGC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGC
*
104685227 CAGTGTAAGACCATGT-TCGGGATATGGCAT
63 CAGTGTAAGACCATGTCT-GGGACATGGCAT
104685257 TGGAATTTTA
Statistics
Matches: 308, Mismatches: 45, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
86 1 0.00
87 30 0.10
88 1 0.00
89 21 0.07
90 5 0.02
92 8 0.03
93 9 0.03
94 1 0.00
95 8 0.03
96 221 0.72
97 2 0.01
98 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
TGTAAGACCATGTCTGGGACATGGCATCGGT
Found at i:104685142 original size:48 final size:48
Alignment explanation
Indices: 104684850--104685208 Score: 254
Period size: 48 Copynumber: 7.7 Consensus size: 48
104684840 TTATGAGAGC
104684850 CAGTGTAAGACCATGTCTGGGACATGGCATCGG---TGTTGATATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTT-ATATGTGT
* ** * *
104684896 GCTAATGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATAGGAG-
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGTTATATGTGT
* * *
104684945 CTAGTGTAAGACCATGTCTGGGACTTGGCATCGTCGTTG--ATATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGTGT
* ** * *
104684992 GCTAGTGTAAGAACATGTCTGGGACATGGCATCGGCCA-CATTATGA-GAGC
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGTTAT-ATGTGT
* * * ** * *
104685042 CAGTGTAAGACCATGTATGGGACAAGACATCGGC-TT-CAATATGCGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATAT--GTGT
* *
104685090 CAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGTGT
* *
104685138 CAGTGTAAGA-CA--------ACATGGCATCGACATTGTTATATATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGTGT
*
104685177 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
104685209 ACACCGATGT
Statistics
Matches: 247, Mismatches: 39, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
39 34 0.14
40 2 0.01
45 1 0.00
46 7 0.03
47 5 0.02
48 178 0.72
49 4 0.02
50 13 0.05
51 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGTGT
Found at i:104685166 original size:39 final size:39
Alignment explanation
Indices: 104685110--104685187 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
104685100 CCATGTTTGG
* *
104685110 AACATGGCATCGGCATTGTTATATGTGTCAGTGTAAGAC
1 AACATGGCATCGACATTGTTATATATGTCAGTGTAAGAC
*
104685149 AACATGGCATCGACATTGTTATATATGTTAGTGTAAGAC
1 AACATGGCATCGACATTGTTATATATGTCAGTGTAAGAC
104685188 CATGTCTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (39 bp):
AACATGGCATCGACATTGTTATATATGTCAGTGTAAGAC
Found at i:104687219 original size:22 final size:23
Alignment explanation
Indices: 104687185--104687232 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
104687175 TCAGACCATT
104687185 CAAACTTTTACATTTTTCTGAAG
1 CAAACTTTTACATTTTTCTGAAG
*
104687208 CAAAC-TTTACATTTTTTTGAAG
1 CAAACTTTTACATTTTTCTGAAG
104687230 CAA
1 CAA
104687233 TCTCGTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (23 bp):
CAAACTTTTACATTTTTCTGAAG
Found at i:104692965 original size:8 final size:8
Alignment explanation
Indices: 104692949--104693019 Score: 52
Period size: 8 Copynumber: 8.9 Consensus size: 8
104692939 GTAGATCAAT
*
104692949 AAATCCCG
1 AAATGCCG
104692957 AAATGCCG
1 AAATGCCG
* **
104692965 AAAAGTTG
1 AAATGCCG
* *
104692973 AAAAGCTG
1 AAATGCCG
* *
104692981 AAATACCA
1 AAATGCCG
*
104692989 AAAAGCCG
1 AAATGCCG
104692997 AAATGCCG
1 AAATGCCG
*
104693005 AAAAGCCG
1 AAATGCCG
104693013 AAATGCC
1 AAATGCC
104693020 AAAAAATCGA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:104693031 original size:16 final size:16
Alignment explanation
Indices: 104692973--104693024 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
104692963 CGAAAAGTTG
* *
104692973 AAAAGCTGAAATACCA
1 AAAAGCCGAAATGCCA
*
104692989 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCA
104693005 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
104693021 AAAA
1 AAAA
104693025 ATCGAAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.54, C:0.21, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:104693303 original size:28 final size:29
Alignment explanation
Indices: 104693242--104693303 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
104693232 GAAAGAATGA
* *
104693242 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGACC
* *
104693271 GTATGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGAGATTTGGGCCTAATGGACC
104693299 ATATG
1 ATATG
104693304 CATGCATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGACC
Found at i:104694849 original size:13 final size:13
Alignment explanation
Indices: 104694831--104694855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104694821 TATTATAATT
104694831 ATTTTATGTTAAC
1 ATTTTATGTTAAC
104694844 ATTTTATGTTAA
1 ATTTTATGTTAA
104694856 AAATAAAAAT
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:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTTATGTTAAC
Found at i:104695636 original size:40 final size:40
Alignment explanation
Indices: 104695588--104695793 Score: 306
Period size: 40 Copynumber: 5.2 Consensus size: 40
104695578 GGACTAAGAT
*
104695588 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
104695628 CCAAAGGCATTTGTGCTAGTTACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
104695668 CCAAAGGCATTTGTGCTAGTTACTATATCTGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
104695708 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
104695748 CCGAAGGCATTTGTGCGAGTTGCTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
104695787 CCGAAGG
1 CCGAAGG
104695794 TACTTGGGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 16 0.11
40 135 0.89
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:104704607 original size:16 final size:16
Alignment explanation
Indices: 104704569--104704607 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
104704559 GGCGGAAAAC
*
104704569 ATGAAAGAAAAAGGAA
1 ATGAAATAAAAAGGAA
* *
104704585 TTAAAATAAAAAGGAA
1 ATGAAATAAAAAGGAA
104704601 ATGAAAT
1 ATGAAAT
104704608 CATAGCAAAA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (16 bp):
ATGAAATAAAAAGGAA
Found at i:104705599 original size:12 final size:12
Alignment explanation
Indices: 104705582--104705606 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104705572 CAGAGGCTAT
104705582 TAACAATATTTA
1 TAACAATATTTA
104705594 TAACAATATTTA
1 TAACAATATTTA
104705606 T
1 T
104705607 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:104708137 original size:21 final size:20
Alignment explanation
Indices: 104708108--104708146 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
104708098 ACGCCTACGA
104708108 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
104708128 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
104708147 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:104708348 original size:16 final size:16
Alignment explanation
Indices: 104708319--104708352 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
104708309 TATCATTTCA
* *
104708319 ATATATATTTAAATAT
1 ATATAAATTAAAATAT
104708335 ATATAAATTAAAATAT
1 ATATAAATTAAAATAT
104708351 AT
1 AT
104708353 TAATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAATTAAAATAT
Found at i:104708350 original size:24 final size:25
Alignment explanation
Indices: 104708318--104708386 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 25
104708308 TTATCATTTC
*
104708318 AATATATATTTAAATATATATAAATT
1 AATA-ATATTTAAATATATATAAATA
*
104708344 AA-AATATATT-AATAATATTTAAATA
1 AATAATAT-TTAAAT-ATATATAAATA
*
104708369 AATAATATTAATAATATA
1 AATAATATTTA-AATATA
104708387 GAAAGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
24 7 0.20
25 15 0.43
26 10 0.29
27 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAATATTTAAATATATATAAATA
Found at i:104708368 original size:35 final size:36
Alignment explanation
Indices: 104708318--104708386 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 36
104708308 TTATCATTTC
104708318 AATATATATTTAAATATATATAA-ATTAA-AATATATT
1 AATATATATTTAAATA-A-ATAATATTAATAATATATT
104708354 AATA-ATATTTAAATAAATAATATTAATAATATA
1 AATATATATTTAAATAAATAATATTAATAATATA
104708387 GAAAGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 4 0.13
34 6 0.19
35 17 0.55
36 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (36 bp):
AATATATATTTAAATAAATAATATTAATAATATATT
Found at i:104717372 original size:17 final size:17
Alignment explanation
Indices: 104717352--104717385 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104717342 TTCGTATATT
*
104717352 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
104717369 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
104717386 GCGAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:104720261 original size:18 final size:18
Alignment explanation
Indices: 104720238--104720274 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
104720228 ATGAAGCTGG
* *
104720238 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
104720256 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
104720274 T
1 T
104720275 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:104722049 original size:20 final size:19
Alignment explanation
Indices: 104721979--104722062 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
104721969 ATAGATAAGA
104721979 AATAGATAAATAATATAA-A-
1 AATA-ATAAAT-ATATAATAG
*
104721998 AATAATACTAATATATATTAG
1 AATAATA--AATATATAATAG
104722019 AAT-AT--ATATATAATAG
1 AATAATAAATATATAATAG
104722035 AATAGATAAATATATAATAG
1 AATA-ATAAATATATAATAG
104722055 AATTAATA
1 AA-TAATA
104722063 TTCTAACATC
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 9 0.17
20 22 0.41
21 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AATAATAAATATATAATAG
Found at i:104725497 original size:15 final size:15
Alignment explanation
Indices: 104725477--104725507 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104725467 CTGTATCAGT
104725477 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
104725492 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
104725507 A
1 A
104725508 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:104730251 original size:18 final size:18
Alignment explanation
Indices: 104730230--104730272 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
104730220 CCTTTCCCCC
*
104730230 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
104730248 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
104730266 TGCTTTC
1 TTCTTTC
104730273 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:104730915 original size:15 final size:17
Alignment explanation
Indices: 104730895--104730926 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
104730885 ACGTTTCATT
104730895 TATATAA-T-CATAAAA
1 TATATAACTGCATAAAA
104730910 TATATAACTGCATAAAA
1 TATATAACTGCATAAAA
104730927 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAACTGCATAAAA
Found at i:104731084 original size:17 final size:17
Alignment explanation
Indices: 104731062--104731100 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
104731052 AATTTAGATG
*
104731062 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
104731079 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
104731096 TAAAA
1 TAAAA
104731101 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:104731184 original size:9 final size:9
Alignment explanation
Indices: 104731170--104731200 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
104731160 ATAAAAAAAG
104731170 ATATTAAAT
1 ATATTAAAT
104731179 ATATTAAAT
1 ATATTAAAT
*
104731188 ATATAAAAT
1 ATATTAAAT
104731197 ATAT
1 ATAT
104731201 AGATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATTAAAT
Found at i:104731217 original size:19 final size:21
Alignment explanation
Indices: 104731183--104731226 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
104731173 TTAAATATAT
104731183 TAAATATATAAAATATATAGA
1 TAAATATATAAAATATATAGA
*
104731204 TAAATA-AT-AAATATATATA
1 TAAATATATAAAATATATAGA
104731223 TAAA
1 TAAA
104731227 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATATATAAAATATATAGA
Found at i:104731403 original size:13 final size:13
Alignment explanation
Indices: 104731387--104731413 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104731377 TTCGAGTCTC
104731387 TAATTCATATTAA
1 TAATTCATATTAA
104731400 TAATTCATATTAA
1 TAATTCATATTAA
104731413 T
1 T
104731414 TATGAATAAC
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTCATATTAA
Found at i:104731843 original size:21 final size:23
Alignment explanation
Indices: 104731801--104731856 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
104731791 TTTATTTATC
104731801 TATTTA-ATATTATATTCAA-TT
1 TATTTATATATTATATTCAATTT
*
104731822 TATTTATATATTATA-TCTATTT
1 TATTTATATATTATATTCAATTT
104731844 TATTATATATATT
1 TATT-TATATATT
104731857 CTAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 9 0.29
22 14 0.45
23 8 0.26
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTATATATTATATTCAATTT
Found at i:104731855 original size:25 final size:25
Alignment explanation
Indices: 104731821--104731936 Score: 81
Period size: 25 Copynumber: 4.9 Consensus size: 25
104731811 TATATTCAAT
* *
104731821 TTATTTATATATTATATCTATTTTA
1 TTATATATATATTATATATATTTTA
104731846 TTATATATAT-TCTA-A-ATATTTTA
1 TTATATATATAT-TATATATATTTTA
* * *
104731869 -TATCTAAATATTTTATATATTTT-
1 TTATATATATATTATATATATTTTA
*
104731892 TATATTTATATATTA-ATAT-TATTT-
1 T-TATATATATATTATATATAT-TTTA
104731916 TTATATAT-TA-TATATATATTT
1 TTATATATATATTATATATATTT
104731937 ATTTCTATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
21 2 0.03
22 16 0.22
23 17 0.23
24 17 0.23
25 21 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATATATATTATATATATTTTA
Found at i:104731876 original size:15 final size:15
Alignment explanation
Indices: 104731851--104731886 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
104731841 TTTTATTATA
104731851 TATATTCTAAATATTT
1 TATA-TCTAAATATTT
104731867 TATATCTAAATATTT
1 TATATCTAAATATTT
104731882 TATAT
1 TATAT
104731887 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATCTAAATATTT
Found at i:104731918 original size:19 final size:19
Alignment explanation
Indices: 104731879--104731936 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
104731869 TATCTAAATA
104731879 TTTTATATATT--T-TTAT
1 TTTTATATATTAATATTAT
*
104731895 ATTTATATATTAATATTAT
1 TTTTATATATTAATATTAT
104731914 TTTTATATATTATATATATAT
1 TTTTATATATTA-ATAT-TAT
104731935 TT
1 TT
104731937 ATTTCTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
18 1 0.03
19 15 0.43
20 4 0.11
21 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATATTAATATTAT
Found at i:104731929 original size:9 final size:9
Alignment explanation
Indices: 104731844--104731932 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
104731834 ATATCTATTT
104731844 TATTATATA
1 TATTATATA
* *
104731853 TATTCTAAA
1 TATTATATA
104731862 TATT-T-TA
1 TATTATATA
104731869 TATCTA-A-A
1 TAT-TATATA
*
104731877 TATTTTATA
1 TATTATATA
*
104731886 TATT-TTTA
1 TATTATATA
104731894 TATT-TATA
1 TATTATATA
104731902 TATTA-ATA
1 TATTATATA
*
104731910 TTATTTTTATA
1 -TA-TTATATA
104731921 TATTATATA
1 TATTATATA
104731930 TAT
1 TAT
104731933 ATTTATTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
7 5 0.08
8 24 0.38
9 27 0.43
10 4 0.06
11 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATATA
Done.