Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 230 of 235
Found at i:77212996 original size:43 final size:43
Alignment explanation
Indices: 77212725--77212996 Score: 246
Period size: 43 Copynumber: 6.3 Consensus size: 43
77212715 TTTTTTTCTC
* * *
77212725 AAACGCCAC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 AAACGCCACTAA-AGACCCTGATCTTTAGCGGCGCTTTCACCAA
* * * * *
77212768 AAACGCCAGTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTA
1 AAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAA
* * * *
77212811 AAACGCCGC-AATAGACCCTGATCTATAGTGGCAC-TTCGACCACA
1 AAACGCCACTAA-AGACCCTGATCTTTAGCGGCGCTTTC-ACCA-A
* * * * *
77212855 AAACACTACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAA
1 AAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAA
* * ** *
77212898 AAACG-CAGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC
1 AAACGCCA-CTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAA
* * *
77212941 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTAACCAA
1 AAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAA
77212984 AAACGCCACTAAA
1 AAACGCCACTAAA
77212997 TTTGGCAGAT
Statistics
Matches: 178, Mismatches: 43, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
42 6 0.03
43 137 0.77
44 30 0.17
45 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAA
Found at i:77212996 original size:86 final size:86
Alignment explanation
Indices: 77212725--77212992 Score: 335
Period size: 86 Copynumber: 3.1 Consensus size: 86
77212715 TTTTTTTCTC
*
77212725 AAACGCCACAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCAG-TAAAGAACCTAA
1 AAACGCCACAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCC-GCTAAAGAACCTAA
*
77212789 TCTTTAGCGGCGCTTTCCCCTA
65 TCTTTAGCGGCGCTTTCCCCAA
* * * * **
77212811 AAACGCCGCAATAGACCCTGATCTATAGTGGCACTTCGACCACAAAACACTACTAAAGAACCTAA
1 AAACGCCACAATAGACCCTGATCTATAGTGGCGCTTTGACCAC-AAACGCCGCTAAAGAACCTAA
77212876 TCTTTAGCGGCGCTTTCCCCAA
65 TCTTTAGCGGCGCTTTCCCCAA
* * ** * *
77212898 AAACG-CAGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 AAACGCCA-C-AATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCGCTAAAGAACCTA
**
77212961 ATCTTTAGCGGCGCTTTAACCAA
64 ATCTTTAGCGGCGCTTTCCCCAA
77212984 AAACGCCAC
1 AAACGCCAC
77212993 TAAATTTGGC
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
86 82 0.53
87 71 0.46
88 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (86 bp):
AAACGCCACAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
CTTTAGCGGCGCTTTCCCCAA
Found at i:77217867 original size:9 final size:9
Alignment explanation
Indices: 77217850--77218165 Score: 72
Period size: 9 Copynumber: 36.2 Consensus size: 9
77217840 TAAGTATAAT
*
77217850 TAAGCTATG
1 TAAGTTATG
77217859 TAAGTTATG
1 TAAGTTATG
77217868 T-A-TTATG
1 TAAGTTATG
77217875 TAAGTTAT-
1 TAAGTTATG
*
77217883 TTA-TTATG
1 TAAGTTATG
* **
77217891 AAAACTATG
1 TAAGTTATG
*
77217900 TAAGTTGTG
1 TAAGTTATG
77217909 T-A-TTATG
1 TAAGTTATG
*
77217916 -AA--AAT-
1 TAAGTTATG
* *
77217921 TATGCTATG
1 TAAGTTATG
*
77217930 TAAGTTATA
1 TAAGTTATG
* *
77217939 TAAGTCATA
1 TAAGTTATG
77217948 TAAGTTATG
1 TAAGTTATG
77217957 T-A-TTATG
1 TAAGTTATG
77217964 TAAGTTATG
1 TAAGTTATG
77217973 TAAGTTAT-
1 TAAGTTATG
*
77217981 TTA-TTATG
1 TAAGTTATG
* * *
77217989 CAAATTGT-
1 TAAGTTATG
77217997 TAAAATGTTATG
1 T--AA-GTTATG
77218009 TAAGTTATG
1 TAAGTTATG
*
77218018 TATA-ATAT-
1 TA-AGTTATG
**
77218026 TAA-TTAAC
1 TAAGTTATG
77218034 TAAGTTATG
1 TAAGTTATG
*
77218043 TAATTTATG
1 TAAGTTATG
*
77218052 TATAATATTAATG
1 --TAA-GTT-ATG
77218065 TAAGTTATG
1 TAAGTTATG
*
77218074 TATA-ATAT-
1 TA-AGTTATG
77218082 TAA-TTAAT-
1 TAAGTT-ATG
77218090 TAAGTTATG
1 TAAGTTATG
*
77218099 TAATTTATG
1 TAAGTTATG
*
77218108 TATAATATTAATG
1 --TAA-GTT-ATG
77218121 TAAGTTATG
1 TAAGTTATG
*
77218130 TATA-ATAT-
1 TA-AGTTATG
77218138 TAA-TTAAT-
1 TAAGTT-ATG
77218146 TAAGTTATG
1 TAAGTTATG
*
77218155 TAATTTATG
1 TAAGTTATG
77218164 TA
1 TA
77218166 TAATATCACA
Statistics
Matches: 229, Mismatches: 42, Indels: 72
0.67 0.12 0.21
Matches are distributed among these distances:
6 3 0.01
7 32 0.14
8 36 0.16
9 121 0.53
10 11 0.05
11 15 0.07
12 5 0.02
13 6 0.03
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:77217876 original size:16 final size:16
Alignment explanation
Indices: 77217855--77217974 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
77217845 ATAATTAAGC
77217855 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
77217871 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
*
77217887 TATG-AA---A---AC
1 TATGTAAGTTATGTAT
*
77217896 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
77217912 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
77217926 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
77217944 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
77217960 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
77217975 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 44 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:77217899 original size:25 final size:25
Alignment explanation
Indices: 77217871--77217988 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
77217861 AGTTATGTAT
77217871 TATGTAAGTTATTTATTATGAAAAC
1 TATGTAAGTTATTTATTATGAAAAC
* * *
77217896 TATGTAAGTTGTGTATTATGAAAAT
1 TATGTAAGTTATTTATTATGAAAAC
* * * **
77217921 TATGCTATGTAAGTTA-TAT-AAGTC
1 TATG-TAAGTTATTTATTATGAAAAC
* * * **
77217945 -ATATAAGTTATGTATTATGTAAGT
1 TATGTAAGTTATTTATTATGAAAAC
77217969 TATGTAAGTTATTTATTATG
1 TATGTAAGTTATTTATTATG
77217989 CAAATTGTTA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 3 0.04
25 46 0.69
26 6 0.09
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATTTATTATGAAAAC
Found at i:77218051 original size:34 final size:34
Alignment explanation
Indices: 77218003--77218171 Score: 134
Period size: 34 Copynumber: 5.7 Consensus size: 34
77217993 TTGTTAAAAT
* *
77218003 GTTATGTAAGTTATGTATAATATTAATTAACTAA
1 GTTATGTAATTTATGTATAATATTAATTAAGTAA
77218037 GTTATGTAATTTATGTATAATATTAA-T--GTAA
1 GTTATGTAATTTATGTATAATATTAATTAAGTAA
*
77218068 GTTATG-----TA--T--AATATTAATTAATTAA
1 GTTATGTAATTTATGTATAATATTAATTAAGTAA
77218093 GTTATGTAATTTATGTATAATATTAA-T--GTAA
1 GTTATGTAATTTATGTATAATATTAATTAAGTAA
*
77218124 GTTATG-----TA--T--AATATTAATTAATTAA
1 GTTATGTAATTTATGTATAATATTAATTAAGTAA
77218149 GTTATGTAATTTATGTATAATAT
1 GTTATGTAATTTATGTATAATAT
77218172 CACATCACCC
Statistics
Matches: 106, Mismatches: 5, Indels: 48
0.67 0.03 0.30
Matches are distributed among these distances:
22 16 0.15
23 2 0.02
24 2 0.02
25 18 0.17
26 4 0.04
30 4 0.04
31 18 0.17
32 2 0.02
33 2 0.02
34 38 0.36
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (34 bp):
GTTATGTAATTTATGTATAATATTAATTAAGTAA
Found at i:77218072 original size:22 final size:22
Alignment explanation
Indices: 77218040--77218085 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
77218030 TAACTAAGTT
*
77218040 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
77218062 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
77218084 AT
1 AT
77218086 TAATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:77218081 original size:56 final size:56
Alignment explanation
Indices: 77218006--77218171 Score: 323
Period size: 56 Copynumber: 3.0 Consensus size: 56
77217996 TTAAAATGTT
*
77218006 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
77218062 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
77218118 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
77218172 CACATCACCC
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 109 1.00
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:77218121 original size:22 final size:22
Alignment explanation
Indices: 77218096--77218146 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
77218086 TAATTAAGTT
77218096 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
77218118 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
77218140 AT-TAATT
1 ATGTAATT
77218147 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:77218254 original size:13 final size:15
Alignment explanation
Indices: 77218235--77218275 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
77218225 CATATAAGTT
77218235 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
77218249 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
77218263 TTATGTAAGTTAT
1 -TATGTAAGTTAT
77218276 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:77218270 original size:16 final size:16
Alignment explanation
Indices: 77218234--77218312 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
77218224 ACATATAAGT
77218234 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
77218249 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
77218263 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
77218281 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
77218297 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
77218313 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:77220838 original size:27 final size:27
Alignment explanation
Indices: 77220806--77220857 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
77220796 TCTTACTTTT
* *
77220806 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
77220833 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
77220858 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:77220940 original size:10 final size:10
Alignment explanation
Indices: 77220925--77220961 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
77220915 TAATAAATAT
77220925 ATATATATCC
1 ATATATATCC
*
77220935 ATATATATTC
1 ATATATATCC
77220945 ATATATATCC
1 ATATATATCC
77220955 ATATATA
1 ATATATA
77220962 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:77222715 original size:14 final size:14
Alignment explanation
Indices: 77222696--77222763 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
77222686 ATGACCGTTG
77222696 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
77222710 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
77222725 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
77222738 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
77222751 AAACCTTAAATCT
1 AAACCCTAAATCT
77222764 ATACCCAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:77222719 original size:15 final size:15
Alignment explanation
Indices: 77222699--77222736 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
77222689 ACCGTTGAAA
77222699 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
77222714 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
77222729 CCCTAAAT
1 CCCTAAAT
77222737 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:77223364 original size:41 final size:41
Alignment explanation
Indices: 77223253--77223571 Score: 210
Period size: 41 Copynumber: 7.8 Consensus size: 41
77223243 TTTTGTTACT
* * * *
77223253 ATTAGCGGCGCTTCGGA-AAAAATGCCGCTAAAGG---TAGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGACAGAGA
* * * *
77223291 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCCAGAGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGACAGAGA
* * *
77223333 ATTAGTGGCGCTCAGATAAAAACGCCACTAAA-AACATGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAGA
* * * * * *
77223373 CTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGAATAGAGA
1 -ATTAGCGGCGCTCAG-ATAAAAACGCCGCTAAAGGACAGAGA
* * * * * * *
77223416 ATTAGTGGCGCTCAGACAATAACGCCACT--ATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAGA
* * *
77223456 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAGA
* *
77223496 CATTAGTGGCGCTCAGATAAAAACGCCGCTAAA-GATCGGAGA
1 -ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGA-CAGAGA
*
77223538 ATTAGCGGCGCT-AAAGTAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGA-TAAAAACGCCGCTAAAGG
77223572 TTTAAAAATC
Statistics
Matches: 218, Mismatches: 45, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
37 2 0.01
38 12 0.06
39 19 0.09
40 33 0.15
41 98 0.45
42 50 0.23
43 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAGA
Found at i:77223404 original size:83 final size:81
Alignment explanation
Indices: 77223290--77223571 Score: 295
Period size: 83 Copynumber: 3.4 Consensus size: 81
77223280 CTAAAGGTAG
* * * *
77223290 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCCAGAGTATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
77223355 CGCCACTAAAAACATGAA
66 CGCCACTAAAAAC--GAA
* * *** * *
77223373 CTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGAATAGAGAATTAGTGGCGCTCAGACAATAA
1 CATTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
* * *
77223438 CGCCACTATGATACGAG
66 CGCCACTA-AAAACGAA
*
77223455 CATTAGCGGCGCTTAG-ACAAAAACGCCGCTAAAGGCCAGA-ACATTAGTGGCGCTCAGATAAAA
1 CATTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGGCCAGAGA-ATTAGTGGCGCTCAGATAAAA
* *
77223518 ACGCCGCTAAAGATCGGAGA
65 ACGCCACTAAA-AAC-GA-A
*
77223538 -ATTAGCGGCGC-TA-AAGTAAAAACGCCGCTAAAGG
1 CATTAGCGGCGCTTAGAA-AAAAAACGCCGCTAAAGG
77223572 TTTAAAAATC
Statistics
Matches: 164, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
80 2 0.01
81 50 0.30
82 47 0.29
83 62 0.38
84 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (81 bp):
CATTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
CGCCACTAAAAACGAA
Found at i:77225330 original size:27 final size:27
Alignment explanation
Indices: 77225292--77225346 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
77225282 GGTGATTATG
77225292 TGGTATTAATTGTGAATTATATACTCT
1 TGGTATTAATTGTGAATTATATACTCT
77225319 TGGTATTAATTGTGAATTATATACTCT
1 TGGTATTAATTGTGAATTATATACTCT
77225346 T
1 T
77225347 AATTCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (27 bp):
TGGTATTAATTGTGAATTATATACTCT
Found at i:77225908 original size:58 final size:58
Alignment explanation
Indices: 77225818--77225939 Score: 210
Period size: 58 Copynumber: 2.1 Consensus size: 58
77225808 GATGTATTCT
77225818 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
* * *
77225876 ATTGTTTGGTTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTTAATTATGA
1 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
77225934 A-TGTTT
1 ATTGTTT
77225940 AATTGTTCTT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 5 0.08
58 56 0.92
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (58 bp):
ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
Found at i:77226929 original size:20 final size:18
Alignment explanation
Indices: 77226887--77226929 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
77226877 AATTTTGAAT
*
77226887 TTTTTATAAATATTTTAA
1 TTTTTAAAAATATTTTAA
*
77226905 ATTTTAAAAATTACTTTTAA
1 TTTTTAAAAA-TA-TTTTAA
77226925 TTTTT
1 TTTTT
77226930 TTAATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAAATATTTTAA
Found at i:77227787 original size:29 final size:32
Alignment explanation
Indices: 77227739--77227798 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
77227729 AATTTTGTGC
77227739 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
* *
77227771 AGGAA-ACAA-TT-GGGCTAGATTGAAGAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAA
77227799 GAAGCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 2 0.08
31 4 0.15
32 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (32 bp):
AGGAATACAATTTGGGGCTAAATAGAAGAAAA
Found at i:77229209 original size:19 final size:18
Alignment explanation
Indices: 77229185--77229243 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
77229175 TAAAAACAAA
77229185 TAAATTTTAGATAAATTAT
1 TAAATTTTA-ATAAATTAT
*
77229204 TAAATTTTAATAAAAATAT
1 TAAATTTTAAT-AAATTAT
* *
77229223 AAAATTTTAA-AATTTAT
1 TAAATTTTAATAAATTAT
77229240 TAAA
1 TAAA
77229244 AATTAGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.24
18 2 0.06
19 24 0.71
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAATTTTAATAAATTAT
Found at i:77229232 original size:26 final size:25
Alignment explanation
Indices: 77229197--77229255 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
77229187 AATTTTAGAT
*
77229197 AAATTATTAAATTTTAATAAAAATATA
1 AAATT-TTAAAATTTAATAAAAAT-TA
*
77229224 AAATTTTAAAATTTATTAAAAATTA
1 AAATTTTAAAATTTAATAAAAATTA
*
77229249 GAATTTT
1 AAATTTT
77229256 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 16 0.55
27 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AAATTTTAAAATTTAATAAAAATTA
Found at i:77229291 original size:11 final size:11
Alignment explanation
Indices: 77229262--77229293 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77229252 TTTTTTTTAT
77229262 AAAATTGTAAA
1 AAAATTGTAAA
77229273 AAAA--GTAAA
1 AAAATTGTAAA
77229282 AAAATTGTAAA
1 AAAATTGTAAA
77229293 A
1 A
77229294 TTTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (11 bp):
AAAATTGTAAA
Found at i:77229589 original size:10 final size:10
Alignment explanation
Indices: 77229574--77229628 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
77229564 TTCTTTTGAC
77229574 TTTATAAAAT
1 TTTATAAAAT
**
77229584 TTTATAATTT
1 TTTATAAAAT
* *
77229594 TTTAT-GATT
1 TTTATAAAAT
77229603 TTTATAAAAT
1 TTTATAAAAT
77229613 TTTATAAAAT
1 TTTATAAAAT
77229623 TTTATA
1 TTTATA
77229629 TTTTTTACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 7 0.18
10 31 0.82
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:77229590 original size:29 final size:29
Alignment explanation
Indices: 77229557--77229646 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
77229547 TTACATTTTG
*
77229557 TATAATTTTCTTTTGA-CTTTATAAAATTT
1 TATAATTTT-TTATGATCTTTATAAAATTT
*
77229586 TATAATTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTATGATCTTTATAAAATTT
** * *
77229615 TATAAAATTTTAT-AT-TTTTTACAATTT
1 TATAATTTTTTATGATCTTTATAAAATTT
77229642 TATAA
1 TATAA
77229647 AGTCGAAACG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 15 0.28
28 7 0.13
29 32 0.59
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (29 bp):
TATAATTTTTTATGATCTTTATAAAATTT
Found at i:77236072 original size:77 final size:77
Alignment explanation
Indices: 77235956--77236108 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
77235946 GTAAGCAGGG
77235956 ATGTCAAATTCGATGAAGGAAGGTTTTGGAGTCTAGATGGCTCTAACACAAGTCAGTTTGAAGAA
1 ATGTCAAATTCGATGAAGGAAGGTTTTGGAGTCTAGATGGCTCTAACACAAGTCAGTTTGAAGAA
*
77236021 GAGCAGATTGAC
66 GAACAGATTGAC
77236033 ATGTCAAATTCGATGAAGGAAGGTTTTGGAGTCTAGATGGCTCTAACACAAGTCAGTTTGAAGAA
1 ATGTCAAATTCGATGAAGGAAGGTTTTGGAGTCTAGATGGCTCTAACACAAGTCAGTTTGAAGAA
77236098 GAACAGATTGA
66 GAACAGATTGA
77236109 AAGCAATCTG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (77 bp):
ATGTCAAATTCGATGAAGGAAGGTTTTGGAGTCTAGATGGCTCTAACACAAGTCAGTTTGAAGAA
GAACAGATTGAC
Found at i:77241872 original size:31 final size:31
Alignment explanation
Indices: 77241814--77241872 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
77241804 CTATTGCATG
*
77241814 ATAAATGTGAAAATTTGAATGACTATAGAGT
1 ATAAATGTGAAAAATTGAATGACTATAGAGT
* *
77241845 ATAAATGT-ATAAAATTGATTGATTATAG
1 ATAAATGTGA-AAAATTGAATGACTATAG
77241873 GGATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (31 bp):
ATAAATGTGAAAAATTGAATGACTATAGAGT
Found at i:77248170 original size:24 final size:25
Alignment explanation
Indices: 77248143--77248196 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
77248133 CAAAAGAGCA
*
77248143 TCCCGGTATAG-GCTCTCTCAAGCT
1 TCCCGGTATAGTGCTCTCGCAAGCT
* **
77248167 TCCCGTTATAGTTTTCTCGCAAGCT
1 TCCCGGTATAGTGCTCTCGCAAGCT
77248192 TCCCG
1 TCCCG
77248197 TTAAATGCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (25 bp):
TCCCGGTATAGTGCTCTCGCAAGCT
Found at i:77248344 original size:24 final size:24
Alignment explanation
Indices: 77248281--77248377 Score: 108
Period size: 24 Copynumber: 4.0 Consensus size: 24
77248271 TTCTGCTTAT
77248281 AGGCTCTTTGTGAGCTTCCCGTTAA
1 AGGCTCTTTGTGAGCTTCCCGTT-A
* *
77248306 AGGCTCCTCG-GAGCTTCCCGTTA
1 AGGCTCTTTGTGAGCTTCCCGTTA
* * *
77248329 AGTGCTCTTTG-AAGCTACCCGATA
1 AG-GCTCTTTGTGAGCTTCCCGTTA
77248353 TAGGCTCTTTGTGAGCTTCCCGTTA
1 -AGGCTCTTTGTGAGCTTCCCGTTA
77248378 TTAAGCCTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.05
24 36 0.61
25 20 0.34
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (24 bp):
AGGCTCTTTGTGAGCTTCCCGTTA
Found at i:77255930 original size:41 final size:39
Alignment explanation
Indices: 77255854--77255930 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
77255844 TATAGCTGTC
**
77255854 GATCGGAACGTAGCTGTCAGTCTACTCACACAAGCTATT
1 GATCGGAACGTAGCTCACAGTCTACTCACACAAGCTATT
77255893 GATCGGAACGTAGCTACACAGTGCTACTCACACAAGCT
1 GATCGGAACGTAGCT-CACAGT-CTACTCACACAAGCT
77255931 GTCAAGTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 15 0.44
40 4 0.12
41 15 0.44
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
GATCGGAACGTAGCTCACAGTCTACTCACACAAGCTATT
Found at i:77262588 original size:29 final size:29
Alignment explanation
Indices: 77262552--77262610 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
77262542 TGCAGAATTA
*
77262552 CCAAAATTCAGGAACATTTTGGAAATTTT
1 CCAAAATTCAGGAACATTTTAGAAATTTT
77262581 CCAAAATTCAGGAACATTTTAGAAATTTT
1 CCAAAATTCAGGAACATTTTAGAAATTTT
77262610 C
1 C
77262611 TATTTTTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (29 bp):
CCAAAATTCAGGAACATTTTAGAAATTTT
Found at i:77272077 original size:30 final size:29
Alignment explanation
Indices: 77272043--77272114 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
77272033 AAATTTAAAA
77272043 AAAAATCTAATTAAATTTTCTAAAAGTTCT
1 AAAAATCTAATTAAA-TTTCTAAAAGTTCT
* * * *
77272073 AAAAATTTCAAGTAAATTTCTAAAATTTTT
1 AAAAATCT-AATTAAATTTCTAAAAGTTCT
77272103 AAAAACTCTAAT
1 AAAAA-TCTAAT
77272115 CTTCTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAAATCTAATTAAATTTCTAAAAGTTCT
Found at i:77272219 original size:3 final size:3
Alignment explanation
Indices: 77272213--77272264 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
77272203 CATCATCATC
77272213 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77272261 ATT A
1 ATT A
77272265 ACTTTTGGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:77276425 original size:17 final size:17
Alignment explanation
Indices: 77276403--77276436 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77276393 TGTCTCCTAT
77276403 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
77276420 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
77276437 GTTAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTTAATATATTAAAGG
Found at i:77276826 original size:26 final size:26
Alignment explanation
Indices: 77276790--77276841 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
77276780 GGATCGGATA
77276790 ACCTCGAAAATATGATCTATATCAGT
1 ACCTCGAAAATATGATCTATATCAGT
77276816 ACCTCGAAAATATGATCTATATCAGT
1 ACCTCGAAAATATGATCTATATCAGT
77276842 GAGAGCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (26 bp):
ACCTCGAAAATATGATCTATATCAGT
Found at i:77277951 original size:19 final size:17
Alignment explanation
Indices: 77277912--77277960 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
77277902 AAAAATTAGA
77277912 AAAAAAT-ATAAAATAT
1 AAAAAATCATAAAATAT
*
77277928 AAAAAATCATAAAATTTT
1 AAAAAATCATAAAA-TAT
77277946 ATAAAAATCATAAAA
1 A-AAAAATCATAAAA
77277961 AAATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 3 0.10
19 13 0.45
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATCATAAAATAT
Found at i:77277961 original size:20 final size:19
Alignment explanation
Indices: 77277902--77277971 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
77277892 TTCAAATATT
* *
77277902 AAAAATTAGAAAAA-AATA
1 AAAAATTATAAAAATCATA
*
77277920 TAAAA-TATAAAAAATCATA
1 AAAAATTAT-AAAAATCATA
**
77277939 AAATTTTATAAAAATCATAA
1 AAAAATTATAAAAATCAT-A
77277959 AAAAATTATAAAA
1 AAAAATTATAAAA
77277972 TATATAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 2 0.05
18 9 0.22
19 14 0.35
20 15 0.38
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:77277971 original size:19 final size:19
Alignment explanation
Indices: 77277930--77277989 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
77277920 TAAAATATAA
**
77277930 AAAATCAT-AAAATTTTAT
1 AAAATCATAAAAAAATTAT
77277948 AAAAATCATAAAAAAATTAT
1 -AAAATCATAAAAAAATTAT
* *
77277968 AAAAT-ATATAGAAA-TAT
1 AAAATCATAAAAAAATTAT
77277985 AAAAT
1 AAAAT
77277990 TTTATAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.22
18 7 0.19
19 13 0.36
20 8 0.22
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATCATAAAAAAATTAT
Found at i:77277973 original size:47 final size:46
Alignment explanation
Indices: 77277901--77277997 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 46
77277891 TTTCAAATAT
*
77277901 TAAAAATTAGAAAAAAATATAAAATATA-AAAAATCATAAAATTTTA
1 TAAAAATCAGAAAAAAATATAAAATATATAAAAAT-ATAAAATTTTA
* *
77277947 TAAAAATCATAAAAAAATTATAAAATATATAGAAATATAAAATTTTA
1 TAAAAATCAGAAAAAAA-TATAAAATATATAAAAATATAAAATTTTA
77277994 TAAA
1 TAAA
77277998 GTTGTAAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 15 0.33
47 26 0.57
48 5 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (46 bp):
TAAAAATCAGAAAAAAATATAAAATATATAAAAATATAAAATTTTA
Found at i:77278032 original size:48 final size:47
Alignment explanation
Indices: 77277901--77278035 Score: 134
Period size: 46 Copynumber: 2.9 Consensus size: 47
77277891 TTTCAAATAT
* * *
77277901 TAAAAATTAGAAAAAAA-TATAAAATATAA-AAAATCATAAAATTTTA
1 TAAAAATCATAAAAAAATTATAAAATATAATGAAAT-ATAAAATTTTA
77277947 TAAAAATCATAAAAAAATTATAAAATAT-ATAGAAATATAAAATTTTA
1 TAAAAATCATAAAAAAATTATAAAATATAAT-GAAATATAAAATTTTA
* ** **
77277994 T-AAAGTTGTAAGGAAATTATACAAAATATAATGAAATATAAA
1 TAAAAATCATAAAAAAATTAT--AAAATATAATGAAATATAAA
77278036 TTTCGTAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
46 30 0.40
47 22 0.29
48 21 0.28
49 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (47 bp):
TAAAAATCATAAAAAAATTATAAAATATAATGAAATATAAAATTTTA
Found at i:77278258 original size:20 final size:20
Alignment explanation
Indices: 77278233--77278273 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
77278223 TGTTAAAGAG
77278233 ATTTTTTGATGCA-TTTTATA
1 ATTTTTTGATG-ATTTTTATA
77278253 ATTTTTTGATGATTTTTATA
1 ATTTTTTGATGATTTTTATA
77278273 A
1 A
77278274 AATTTTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (20 bp):
ATTTTTTGATGATTTTTATA
Found at i:77278279 original size:20 final size:20
Alignment explanation
Indices: 77278236--77278279 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
77278226 TAAAGAGATT
**
77278236 TTTTGATGCATTTTATAATT
1 TTTTGATGCATTTTATAAAA
77278256 TTTTGATG-ATTTTTATAAAA
1 TTTTGATGCA-TTTTATAAAA
77278276 TTTT
1 TTTT
77278280 ACAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTTGATGCATTTTATAAAA
Found at i:77278286 original size:19 final size:18
Alignment explanation
Indices: 77278264--77278346 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
77278254 TTTTTTGATG
77278264 ATTTTTATAAAATTTTACA
1 ATTTTTATAAAATTTT-CA
***
77278283 ATTTTT-TACCTTTTTACA
1 ATTTTTATAAAATTTT-CA
**
77278301 ATTTTTATAAAAAATTCTA
1 ATTTTTATAAAATTTTC-A
77278320 ATTTTTA-ATAAATTTTCA
1 ATTTTTATA-AAATTTTCA
*
77278338 AATTTTATA
1 ATTTTTATA
77278347 TTTTTATTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
18 24 0.49
19 25 0.51
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTATAAAATTTTCA
Found at i:77278357 original size:26 final size:26
Alignment explanation
Indices: 77278311--77278371 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
77278301 ATTTTTATAA
* *
77278311 AAAATTCTA-ATTTTTAATAAATTTT
1 AAAATTTTATATTTTTAATAAAATTT
* *
77278336 CAAATTTTATATTTTTATTAAAATTT
1 AAAATTTTATATTTTTAATAAAATTT
77278362 AAAATTTTAT
1 AAAATTTTAT
77278372 CTATAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAATTTTATATTTTTAATAAAATTT
Found at i:77278362 original size:18 final size:19
Alignment explanation
Indices: 77278341--77278382 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
77278331 ATTTTCAAAT
*
77278341 TTTATATTTTTAT-TAAAA
1 TTTATAATTTTATCTAAAA
* *
77278359 TTTAAAATTTTATCTATAA
1 TTTATAATTTTATCTAAAA
77278378 TTTAT
1 TTTAT
77278383 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAATTTTATCTAAAA
Found at i:77278517 original size:86 final size:87
Alignment explanation
Indices: 77278425--77278594 Score: 238
Period size: 88 Copynumber: 2.0 Consensus size: 87
77278415 AGAGCAGGGC
* * * *
77278425 CTTAATTG-TTTTTTTTGAA-AAATTTTGAGGGTCATGTTGATGCATTTTGAAAGTTCAAGT-AT
1 CTTAATTGCTTTTTTTTGAAGAAA-TTTGAGGGCCATGTTAATGCATTTTAAAAGTTCAAGTGCT
77278487 CCAATTGAGTGCAAAAAAAAAGAA
65 -CAATTGAGTGCAAAAAAAAAGAA
* *
77278511 CTTAATTGCTTTTTTTTTGAAGAAATTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTGCT
1 CTTAATTGC-TTTTTTTTGAAGAAATTTGAGGGCCATGTTAATGCATTTTAAAAGTTCAAGTGCT
77278576 CAATTGAGTGCAAAAAAAA
65 CAATTGAGTGCAAAAAAAA
77278595 GAGAGGAGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
86 8 0.11
88 62 0.84
89 4 0.05
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (87 bp):
CTTAATTGCTTTTTTTTGAAGAAATTTGAGGGCCATGTTAATGCATTTTAAAAGTTCAAGTGCTC
AATTGAGTGCAAAAAAAAAGAA
Found at i:77279232 original size:18 final size:19
Alignment explanation
Indices: 77279193--77279233 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
77279183 AAAAATTAAA
*
77279193 AAAATTAAAAGTAATTTTT
1 AAAATTAAAAGTAATTTAT
77279212 AAAATTCAAAA-T-ATTTAT
1 AAAATT-AAAAGTAATTTAT
77279230 AAAA
1 AAAA
77279234 AATTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTAAAAGTAATTTAT
Found at i:77283074 original size:41 final size:41
Alignment explanation
Indices: 77283015--77283256 Score: 164
Period size: 41 Copynumber: 5.7 Consensus size: 41
77283005 GTATCTTTGG
* *
77283015 TCTACTCCACTGTGACTTCAGGGAGATAAGACCTGATGCGA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
* * * * **
77283056 TCTACTCCGCTGTAACTTCAGAGAGATGAGATCCCTTATTTTAA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGA--CCTGA-TTCGA
* * * * ** *
77283100 TCTGCCCCACTGTAAAC-TCGGGGAGATAGGATAGTGTCTTCGA
1 TCTACTCCACTGT-AACTTCAGGGAGATAAGA-CCTG-ATTCGA
* * * *
77283143 TCTACTCCGCTGTAA-TCTCAGGGAGACAAGATCTGAAATTCTTCGG
1 TCTACTCCACTGTAACT-TCAGGGAGATAAGACCTG--A---TTCGA
* *
77283189 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
*
77283230 TCTACTCCACTGTAACTTCAGAGAGAT
1 TCTACTCCACTGTAACTTCAGGGAGAT
77283257 GAGATCCTTT
Statistics
Matches: 148, Mismatches: 41, Indels: 24
0.69 0.19 0.11
Matches are distributed among these distances:
41 55 0.37
42 4 0.03
43 29 0.20
44 23 0.16
45 3 0.02
46 34 0.23
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
Found at i:77283175 original size:87 final size:87
Alignment explanation
Indices: 77283053--77283349 Score: 305
Period size: 87 Copynumber: 3.4 Consensus size: 87
77283043 AGACCTGATG
* *
77283053 CGATCTACTCCGCTGTAACTTCAGAGAGATGAGATCCCTTATTTTAATCTGCCCCACTGTAAACT
1 CGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCTGCTCCACTGTAAACT
*
77283118 CGGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
* * **** ** *
77283140 CGATCTACTCCGCTGTAA-TCTCAGGGAGACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAA
1 CGATCTACTCCGCTGTAACT-TCAGAGAGATAAGATCCCTTATT-TT-AATCTGCTCCACTGTAA
* * ** * *
77283204 CCTCAGGGAGATAAGA-CCTG-ATG
63 ACTCAGGGAGATAGGATAGTGTCTT
* * * * *
77283227 CGATCTACTCCACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCGCTGTAAACT
1 CGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCTGCTCCACTGTAAACT
*
77283292 TAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
*
77283314 CGATCTACTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 CGATCTACTCCGCTGTAACT-TCAGAGAGATAAGATC
77283350 TCTGGCTTCA
Statistics
Matches: 162, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
85 25 0.15
86 6 0.04
87 100 0.62
88 5 0.03
89 26 0.16
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCTGCTCCACTGTAAACT
CAGGGAGATAGGATAGTGTCTT
Found at i:77283194 original size:46 final size:46
Alignment explanation
Indices: 77283136--77283255 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
77283126 TAGGATAGTG
* * *
77283136 TCTTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
* *
77283182 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
* * *
77283225 --TGCGATCTACTCCACTGTAACTTCAGAGAGA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGA
77283256 TGAGATCCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 27 0.42
44 1 0.02
46 37 0.57
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
Found at i:77283303 original size:174 final size:174
Alignment explanation
Indices: 77283008--77283350 Score: 587
Period size: 174 Copynumber: 2.0 Consensus size: 174
77282998 AATACTTGTA
* * * *
77283008 TCTTTGGTCTACTCCACTGTGACTTCAGGGAGATAAGACCTGATGCGATCTACTCCGCTGTAACT
1 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
* *
77283073 TCAGAGAGATGAGATCCCTTATTTTAATCTGCCCCACTGTAAACTCGGGGAGATAGGATAGTGTC
66 TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
77283138 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
131 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
77283182 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
1 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
* * * *
77283247 TCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCGCTGTAAACTTAGGGAGATAGGATAGTGTC
66 TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
*
77283312 TTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
131 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCT
77283351 CTGGCTTCAA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 158 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (174 bp):
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
Found at i:77297658 original size:31 final size:32
Alignment explanation
Indices: 77297595--77297659 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
77297585 AAGATATCAT
* *
77297595 TTCAACTCTTTTTCAAAAGGTTAATGGTCAAA
1 TTCAACTCTTTTTCAAAAGATTAAGGGTCAAA
* *
77297627 TTCAACTCTTTTT-AAAATATTGAGGGTCAAA
1 TTCAACTCTTTTTCAAAAGATTAAGGGTCAAA
77297658 TT
1 TT
77297660 TAGTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (32 bp):
TTCAACTCTTTTTCAAAAGATTAAGGGTCAAA
Found at i:77299514 original size:28 final size:27
Alignment explanation
Indices: 77299483--77299544 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
77299473 GGCATTGTTT
*
77299483 TTTTATGATACATATACATACGCATGGC
1 TTTTATAATACATATACATACGCAT-GC
* * * *
77299511 TTTTATAATATATATATATAGGCATTC
1 TTTTATAATACATATACATACGCATGC
77299538 TTTTATA
1 TTTTATA
77299545 CAGTATGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (27 bp):
TTTTATAATACATATACATACGCATGC
Found at i:77303318 original size:20 final size:20
Alignment explanation
Indices: 77303293--77303332 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
77303283 TTCACCTCAT
77303293 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
77303313 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
77303333 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:77311586 original size:88 final size:88
Alignment explanation
Indices: 77311437--77311609 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
77311427 TCGGAAAAAG
* *
77311437 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCGTGTCTTCATGTAC
77311502 CCGAGTGAAGTAGATCAAAGAAA
66 CCGAGTGAAGTAGATCAAAGAAA
* * * * * *
77311525 CAGATCTTGTC-TCCCTATACTGGTGGTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTA
1 CAGATCTTGCCTTCCC-ATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCGTGTCTTCATGTA
** *
77311589 CTGGCGTGAAGTAGATCAAAG
65 CCCGAGTGAAGTAGATCAAAG
77311610 GTAGTAGGTC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 4 0.05
88 69 0.95
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (88 bp):
CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCGTGTCTTCATGTAC
CCGAGTGAAGTAGATCAAAGAAA
Found at i:77311591 original size:45 final size:44
Alignment explanation
Indices: 77311464--77311609 Score: 159
Period size: 44 Copynumber: 3.3 Consensus size: 44
77311454 TACTGGTGGC
* * **
77311464 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACCCGAGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGAGT
* * * *
77311508 GAAGTAGATCAAAG-AAACAGATCTTGTCTCCCTATACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-AGT
* * * * *
77311552 GGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGAGT
77311596 GAAGTAGATCAAAG
1 GAAGTAGATCAAAG
77311610 GTAGTAGGTC
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
43 20 0.25
44 39 0.48
45 22 0.27
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGAGT
Found at i:77313556 original size:28 final size:27
Alignment explanation
Indices: 77313525--77313586 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
77313515 GGCATTGTTT
*
77313525 TTTTATGATACATATACATACGCATGGC
1 TTTTATAATACATATACATACGCAT-GC
* * * *
77313553 TTTTATAATATATATATATAGGCATTC
1 TTTTATAATACATATACATACGCATGC
77313580 TTTTATA
1 TTTTATA
77313587 CAGTATGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (27 bp):
TTTTATAATACATATACATACGCATGC
Found at i:77315476 original size:4 final size:4
Alignment explanation
Indices: 77315467--77315532 Score: 63
Period size: 4 Copynumber: 18.0 Consensus size: 4
77315457 ACTAATTCTT
* *
77315467 TTTC TTTC TTT- TTTC CTTC TTTC -TT- TTTC TTTC TTT- TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
77315511 -TTC TTCC TTTC TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC
77315533 ATCTTCTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 16 0.31
4 35 0.69
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:77315488 original size:15 final size:16
Alignment explanation
Indices: 77315468--77315529 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
77315458 CTAATTCTTT
77315468 TTCTTTCTTTT-TTCC
1 TTCTTTCTTTTCTTCC
*
77315483 TTCTTTCTTTTTCTTTC
1 TTCTTTC-TTTTCTTCC
*
77315500 TTTTTTCCTTCTTCTTCC
1 TTCTTT-CTT-TTCTTCC
77315518 TTTCTTTCTTTT
1 -TTCTTTCTTTT
77315530 TTCATCTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.18
16 4 0.11
17 12 0.32
18 10 0.26
19 5 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTCTTTTCTTCC
Found at i:77315496 original size:25 final size:24
Alignment explanation
Indices: 77315462--77315532 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 24
77315452 ATCCAACTAA
77315462 TTCTTTTTCTTTCTTTTTTCCTTC
1 TTCTTTTTCTTTCTTTTTTCCTTC
77315486 TTTCTTTTTCTTTCTTTTTTCCTTC
1 -TTCTTTTTCTTTCTTTTTTCCTTC
77315511 TTCTTCCTTTCTTTCTTTTTTC
1 TTCTT--TTTCTTTCTTTTTTC
77315533 ATCTTCTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.11
25 24 0.55
26 15 0.34
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTTCTTTCTTTTTTCCTTC
Found at i:77315514 original size:14 final size:14
Alignment explanation
Indices: 77315472--77315515 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
77315462 TTCTTTTTCT
77315472 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
77315486 TT-TCTTTTT-C-T-
1 TTCT-TTTTTCCTTC
77315497 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
77315511 TTCTT
1 TTCTT
77315516 CCTTTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 3 0.12
14 12 0.48
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTTTTTCCTTC
Found at i:77315532 original size:11 final size:11
Alignment explanation
Indices: 77315465--77315524 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
77315455 CAACTAATTC
77315465 TTTTTCTTTCT
1 TTTTTCTTTCT
*
77315476 TTTTTCCTTCTTT
1 TTTTT-CTT-TCT
77315489 CTTTTTCTTTCT
1 -TTTTTCTTTCT
*
77315501 TTTTTCCTTCT
1 TTTTTCTTTCT
* *
77315512 TCTTCCTTTCT
1 TTTTTCTTTCT
77315523 TT
1 TT
77315525 CTTTTTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
11 24 0.62
12 5 0.13
13 5 0.13
14 5 0.13
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:77315537 original size:22 final size:22
Alignment explanation
Indices: 77315470--77315538 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
77315460 AATTCTTTTT
* *
77315470 CTTTCTTTTTTCCTTCTTTCTTTTT
1 CTTTCTTTTTTCCTTC-ATC--TTC
*
77315495 CTTTCTTTTTTCCTTCTTCTTC
1 CTTTCTTTTTTCCTTCATCTTC
*
77315517 CTTTCTTTCTTT-TTTCATCTTC
1 CTTTCTTT-TTTCCTTCATCTTC
77315539 TCAAACCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 18 0.45
23 3 0.08
24 3 0.08
25 16 0.40
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTCTTTTTTCCTTCATCTTC
Found at i:77316313 original size:30 final size:31
Alignment explanation
Indices: 77316279--77316356 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
77316269 AGTAAGGGGT
77316279 CAAAATGTAATTTTAAGAAAAATTGA-GAGC
1 CAAAATGTAATTTTAAGAAAAATTGAGGAGC
* * * * *
77316309 CAAAATGTAATTTTAGGAAATATTTAGGGGT
1 CAAAATGTAATTTTAAGAAAAATTGAGGAGC
77316340 CAAAATGTAAATTTTAA
1 CAAAATGT-AATTTTAA
77316357 ATTTTTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 23 0.57
31 10 0.25
32 7 0.17
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (31 bp):
CAAAATGTAATTTTAAGAAAAATTGAGGAGC
Found at i:77316868 original size:76 final size:75
Alignment explanation
Indices: 77316664--77317281 Score: 763
Period size: 75 Copynumber: 8.2 Consensus size: 75
77316654 TGTCTATTTT
* * * * * * * *
77316664 TTTTTGAAAAACAGAAATCGAAAATAACTCAGCGTGCGATCCAAAGTTCAACTCACATCTCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
*
77316729 TATGAATTGA
66 TATGAGTTGA
* * * *
77316739 TCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGCGACTCGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
*
77316804 TATGAATTGA
66 TATGAGTTGA
* * ** * * *
77316814 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCAAGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGA
*
77316879 TTACGAGTTGA
65 TTATGAGTTGA
* * *
77316890 TTTTTG-AAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTCACCTCTCGAA
1 TTTTTGAAAAAC-AGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGA
*
77316954 TTATAAGTTGA
65 TTATGAGTTGA
* * * *
77316965 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTCGAA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGA
77317030 TTATGAGTTGA
65 TTATGAGTTGA
** * * * *
77317041 TTTTTGAAAATTAGAAATTGAAAATATCTCAACGTGCGACCTGAGGCTCAATTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
77317106 TATGAGTTGA
66 TATGAGTTGA
* * * * *
77317116 -TTTTGAAAAACAGAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
*
77317180 TATGAGTTCA
66 TATGAGTTGA
* * * * **
77317190 TTTTTGAAAAACTGAAATTGAAAATACATCAGCGTGCGACCCGATGCTCAACTCACCTATTAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
77317255 TATGAGTTGA
66 TATGAGTTGA
77317265 TTTTTGAAAAACAGAAA
1 TTTTTGAAAAACAGAAA
77317282 AAGAAGTGGT
Statistics
Matches: 469, Mismatches: 69, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
74 69 0.15
75 269 0.57
76 127 0.27
77 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (75 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
TATGAGTTGA
Found at i:77316868 original size:151 final size:150
Alignment explanation
Indices: 77316664--77317282 Score: 753
Period size: 151 Copynumber: 4.1 Consensus size: 150
77316654 TGTCTATTTT
* * * * * * *
77316664 TTTTTGAAAAACAGAAATCGAAAATAACTCAGCGTGCGATCCAAAGTTCAACTCACATCTCAGAT
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTCTCAGAT
* * * * *
77316729 TATGAATTGATCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGCGACTCGAGGCTCAACTCA
66 TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
77316794 CCTCTCGGATTATGAATTGA
131 CCTCTCGGATTATGAATTGA
* ** * * *
77316814 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCAAGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAAAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTCTCAGA
* * *
77316879 TTACGAGTTGATTTTTGAAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTC
65 TTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
*
77316944 ACCTCTCGAATTAT-AAGTTGA
130 ACCTCTCGGATTATGAA-TTGA
* * * *
77316965 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTC-GA
1 TTTTTGAAAAACAA-AAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTCTCAG-
* * * *
77317029 ATTATGAGTTGATTTTTGAAAATTAGAAATTGAAAATATC-TCAACGTGCGACCTGAGGCTCAAT
64 ATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATA-CATCAGCGTGCGACCCGAGGCTCAAC
*
77317093 TCACCTCTCGGATTATGAGTTGA
128 TCACCTCTCGGATTATGAATTGA
* * * ** *
77317116 -TTTTGAAAAACAGAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTCTCAGAT
* *
77317180 TATGAGTTCATTTTTGAAAAACT-GAAATTGAAAATACATCAGCGTGCGACCCGATGCTCAACTC
66 TATGAGTTGATTTTTGAAAAA-TAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
* ** *
77317244 ACCTATTAGATTATGAGTTGA
130 ACCTCTCGGATTATGAATTGA
77317265 TTTTTGAAAAACAGAAAA
1 TTTTTGAAAAACA-AAAA
77317283 AGAAGTGGTT
Statistics
Matches: 402, Mismatches: 56, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
148 1 0.00
149 115 0.29
150 41 0.10
151 243 0.60
152 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (150 bp):
TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTCTCAGAT
TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
CCTCTCGGATTATGAATTGA
Found at i:77322625 original size:22 final size:20
Alignment explanation
Indices: 77322597--77322645 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
77322587 ATCTATTATG
*
77322597 CAATTTAACTAAGTAACCTAAT
1 CAATTTAACTAA--AACATAAT
*
77322619 CAATTTATCTAAAACATAAT
1 CAATTTAACTAAAACATAAT
77322639 CAATTTA
1 CAATTTA
77322646 TCTCATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.56
22 11 0.44
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (20 bp):
CAATTTAACTAAAACATAAT
Found at i:77325598 original size:27 final size:26
Alignment explanation
Indices: 77325562--77325614 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
77325552 AAATGTGAAG
*
77325562 GGGGTTGCTA-AGTGTTGATTCTCCCAA
1 GGGGTTGCTATA-TGCTGATTC-CCCAA
77325589 GGGGTTGCTATATGCTGATTCCCCAA
1 GGGGTTGCTATATGCTGATTCCCCAA
77325615 ATCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 18 0.75
28 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (26 bp):
GGGGTTGCTATATGCTGATTCCCCAA
Found at i:77325855 original size:287 final size:287
Alignment explanation
Indices: 77325339--77325914 Score: 1143
Period size: 287 Copynumber: 2.0 Consensus size: 287
77325329 TTTGATATCA
*
77325339 TTCAATATATGTTGGGATTTAATAGAACATAGAATAAATATTCGGCAAGATCCTAAAAATGTGGT
1 TTCAATATATGTTGGGATTTAATAGAACATAGAATAAATATTCAGCAAGATCCTAAAAATGTGGT
77325404 TAAGTTGGGAAATGTGGTAAAATGTTGAAAATATGGGTTCCGGTTGAACACTCGGAATAAGCCGA
66 TAAGTTGGGAAATGTGGTAAAATGTTGAAAATATGGGTTCCGGTTGAACACTCGGAATAAGCCGA
77325469 AGTATTATAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTG
131 AGTATTATAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTG
77325534 CTGATCCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAAGGGGTTGCTA
196 CTGATCCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAAGGGGTTGCTA
77325599 TATGCTGATTCCCCAAATCATTGGTGG
261 TATGCTGATTCCCCAAATCATTGGTGG
77325626 TTCAATATATGTTGGGATTTAATAGAACATAGAATAAATATTCAGCAAGATCCTAAAAATGTGGT
1 TTCAATATATGTTGGGATTTAATAGAACATAGAATAAATATTCAGCAAGATCCTAAAAATGTGGT
77325691 TAAGTTGGGAAATGTGGTAAAATGTTGAAAATATGGGTTCCGGTTGAACACTCGGAATAAGCCGA
66 TAAGTTGGGAAATGTGGTAAAATGTTGAAAATATGGGTTCCGGTTGAACACTCGGAATAAGCCGA
77325756 AGTATTATAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTG
131 AGTATTATAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTG
77325821 CTGATCCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAAGGGGTTGCTA
196 CTGATCCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAAGGGGTTGCTA
77325886 TATGCTGATTCCCCAAATCATTGGTGG
261 TATGCTGATTCCCCAAATCATTGGTGG
77325913 TT
1 TT
77325915 GTGCTGATTC
Statistics
Matches: 288, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
287 288 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (287 bp):
TTCAATATATGTTGGGATTTAATAGAACATAGAATAAATATTCAGCAAGATCCTAAAAATGTGGT
TAAGTTGGGAAATGTGGTAAAATGTTGAAAATATGGGTTCCGGTTGAACACTCGGAATAAGCCGA
AGTATTATAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTG
CTGATCCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAAGGGGTTGCTA
TATGCTGATTCCCCAAATCATTGGTGG
Found at i:77325885 original size:27 final size:26
Alignment explanation
Indices: 77325849--77325901 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
77325839 AAATGTGAAG
*
77325849 GGGGTTGCTA-AGTGTTGATTCTCCCAA
1 GGGGTTGCTATA-TGCTGATTC-CCCAA
77325876 GGGGTTGCTATATGCTGATTCCCCAA
1 GGGGTTGCTATATGCTGATTCCCCAA
77325902 ATCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 18 0.75
28 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (26 bp):
GGGGTTGCTATATGCTGATTCCCCAA
Found at i:77325907 original size:102 final size:98
Alignment explanation
Indices: 77325774--77325967 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 98
77325764 AAATGTGAAG
* *
77325774 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT-TT
1 GGGGTTGCTAAGTGCTGATTCCCCAAATCATTGGTGG-T--T--GTGCTGATCCCACCATATCTT
*
77325838 TAAATGTGAAGGGGGTTGCTAAGTGTTGATTCTCCCAA
61 TAAATGTGAAAGGGGTTGCTAAGTGTTGATTCTCCCAA
* *
77325876 GGGGTTGCTATA-TGCTGATTCCCCAAATCATTGGTGGTTGTGCTGATTCCACCATATCTTTGAA
1 GGGGTTGCTA-AGTGCTGATTCCCCAAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAA
77325940 TGTGAAAGGGGTTGCTAAGTGTTGATTC
65 TGTGAAAGGGGTTGCTAAGTGTTGATTC
77325968 CCCGAATCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
97 16 0.19
98 32 0.38
99 1 0.01
101 1 0.01
102 34 0.40
103 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (98 bp):
GGGGTTGCTAAGTGCTGATTCCCCAAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAAT
GTGAAAGGGGTTGCTAAGTGTTGATTCTCCCAA
Found at i:77327254 original size:18 final size:18
Alignment explanation
Indices: 77327231--77327269 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
77327221 TACAATTGAG
* *
77327231 AATGAAAATAACACAATT
1 AATGAAAATAAAAAAATT
*
77327249 AATGAATATAAAAAAATT
1 AATGAAAATAAAAAAATT
77327267 AAT
1 AAT
77327270 ATACTATCTA
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:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATGAAAATAAAAAAATT
Found at i:77330659 original size:25 final size:24
Alignment explanation
Indices: 77330610--77330659 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
77330600 AATTTTTTTC
*
77330610 TTTAATTTTTAATATAATTTGAAT
1 TTTAATTTTTAATATAATTTCAAT
*
77330634 TTTACATTTTT-ATATTATTCTCAAT
1 TTTA-ATTTTTAATATAATT-TCAAT
77330659 T
1 T
77330660 AATTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTAATTTTTAATATAATTTCAAT
Found at i:77333505 original size:21 final size:21
Alignment explanation
Indices: 77333479--77333520 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
77333469 CCCATCCTAA
* *
77333479 CAACACCTCTAATATTTTTGT
1 CAACACCGCTAATATTATTGT
77333500 CAACACCGCTAATATTATTGT
1 CAACACCGCTAATATTATTGT
77333521 TTTGTTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (21 bp):
CAACACCGCTAATATTATTGT
Found at i:77338376 original size:55 final size:55
Alignment explanation
Indices: 77338296--77338426 Score: 181
Period size: 55 Copynumber: 2.4 Consensus size: 55
77338286 TGTGTCTGAC
* * *
77338296 CCCATGTAACTCACTGAATTGGGTCACACGGCCAACCACACACCCATGTGACTAG
1 CCCATGCAACTCACTGACTTAGGTCACACGGCCAACCACACACCCATGTGACTAG
* * * * *
77338351 CCCGTGGAACTCACTGACTTAGGTCACATGGCCAACCACACGCCTATGTGACTAG
1 CCCATGCAACTCACTGACTTAGGTCACACGGCCAACCACACACCCATGTGACTAG
*
77338406 CCCATGCAACTTACTGACTTA
1 CCCATGCAACTCACTGACTTA
77338427 CTTTCATTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (55 bp):
CCCATGCAACTCACTGACTTAGGTCACACGGCCAACCACACACCCATGTGACTAG
Found at i:77345115 original size:55 final size:55
Alignment explanation
Indices: 77344991--77345117 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
77344981 TCCCCACCCG
* * * * *
77344991 TGTAACTCACTAACTTGGGTCACACGGCCAGCCACATGCTTGTGTGACTAGTCCA
1 TGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCTCGTGTGACTAGCCCA
** * *
77345046 TGTAACTCGTTGACTTGGGTCACGCGGCTAACCACACG-TCCGTGTGACTAGCCCA
1 TGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCT-CGTGTGACTAGCCCA
*
77345101 TGTAAATCACTGACTTG
1 TGTAACTCACTGACTTG
77345118 CTTTCATTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 1 0.02
55 58 0.98
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (55 bp):
TGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCTCGTGTGACTAGCCCA
Found at i:77348342 original size:5 final size:5
Alignment explanation
Indices: 77348315--77348355 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
77348305 ATTTACTGAT
* *
77348315 TTTTA TTTT- TTTTC TTTGA -TTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
77348356 GCGAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:77348963 original size:15 final size:15
Alignment explanation
Indices: 77348925--77348963 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
77348915 TAATTATATT
77348925 TATTATTA-TTTTAA
1 TATTATTATTTTTAA
77348939 TA-TATATATTTTTAA
1 TATTAT-TATTTTTAA
77348954 TATTATTATT
1 TATTATTATT
77348964 GCTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.14
14 4 0.18
15 12 0.55
16 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTATTTTTAA
Found at i:77349183 original size:19 final size:20
Alignment explanation
Indices: 77349146--77349183 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
77349136 ACACTTGTTT
77349146 TAAAATTTATGTATTATTAC
1 TAAAATTTATGTATTATTAC
*
77349166 TAAAATTT-TGTTTTATTA
1 TAAAATTTATGTATTATTA
77349184 TGATATGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TAAAATTTATGTATTATTAC
Found at i:77351436 original size:25 final size:25
Alignment explanation
Indices: 77351401--77351448 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
77351391 ATGAAGGAAA
*
77351401 GATTGATGTTGTTTCTTGGAGTACT
1 GATTGACGTTGTTTCTTGGAGTACT
77351426 GATTGACGTTGTTTCTTGGAGTA
1 GATTGACGTTGTTTCTTGGAGTA
77351449 TGAGGGCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.17, C:0.08, G:0.29, T:0.46
Consensus pattern (25 bp):
GATTGACGTTGTTTCTTGGAGTACT
Found at i:77352951 original size:30 final size:28
Alignment explanation
Indices: 77352915--77352970 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
77352905 TCCTATAAGT
77352915 TCAAATCCAAAAAAATATTTCAAAAAAAAA
1 TCAAAT-C-AAAAAATATTTCAAAAAAAAA
*
77352945 TCAAATCGAAAAATATTTCAAAAAAA
1 TCAAATCAAAAAATATTTCAAAAAAA
77352971 TGAAAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 18 0.72
29 1 0.04
30 6 0.24
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (28 bp):
TCAAATCAAAAAATATTTCAAAAAAAAA
Found at i:77352983 original size:14 final size:14
Alignment explanation
Indices: 77352966--77353019 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
77352956 AATATTTCAA
*
77352966 AAAAATGAAAAACT
1 AAAAATGAAAAAAT
*
77352980 AAAAATAAAAAAAT
1 AAAAATGAAAAAAT
* *
77352994 GAAAATGATAAAAAG
1 AAAAATGA-AAAAAT
*
77353009 AAAAAAGAAAA
1 AAAAATGAAAA
77353020 GAAAAAGGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:77353005 original size:23 final size:22
Alignment explanation
Indices: 77352964--77353014 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
77352954 AAAATATTTC
*
77352964 AAAAAAATGAAAAACTAAAAAT
1 AAAAAAATGAAAAACTAAAAAG
77352986 AAAAAAATGAAAATGA-TAAAAAG
1 AAAAAAATGAAAA--ACTAAAAAG
77353009 AAAAAA
1 AAAAAA
77353015 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.50
23 12 0.46
24 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAAAAATGAAAAACTAAAAAG
Found at i:77354065 original size:16 final size:17
Alignment explanation
Indices: 77354028--77354069 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
77354018 GCTTTGAGTC
* *
77354028 ATAA-AAAAAATAATAA
1 ATAAGAAAAAAGAAGAA
77354044 ATAAGAAAAAAGAAGAA
1 ATAAGAAAAAAGAAGAA
77354061 A-AAGAAAAA
1 ATAAGAAAAA
77354070 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
ATAAGAAAAAAGAAGAA
Found at i:77355320 original size:45 final size:43
Alignment explanation
Indices: 77355250--77355421 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 43
77355240 CAGATCGAAT
* * *
77355250 ATAGCAAGTCTTATCTCACTGAAGTTGCAGCGGAGCAGACTGAAG
1 ATAGCAAATCTTATCTC-CTGAAGTTGCAGTGGAGC-GATTGAAG
* *
77355295 ATAGCAAATCTTATCTTCCTAAAGTTACAGTGGAGCGCATTGAAG
1 ATAGCAAATCTTATC-TCCTGAAGTTGCAGTGGAGCG-ATTGAAG
* * * * *
77355340 ATAGCAAATCCTATCTCCTTGAAGTTGAAATGGAGTGGATTCAAG
1 ATAGCAAATCTTATCTCC-TGAAGTTGCAGTGGAG-CGATTGAAG
*
77355385 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCG
1 ATAGCAAATCTTATCT-CCTGAAGTTGCAGTGGAGCG
77355422 GACTAAAGCC
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
44 5 0.05
45 95 0.90
46 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
ATAGCAAATCTTATCTCCTGAAGTTGCAGTGGAGCGATTGAAG
Found at i:77356755 original size:45 final size:45
Alignment explanation
Indices: 77356704--77356789 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
77356694 TGTGAACCGA
* * * *
77356704 ACATCATTGATTAGTAAGGTGGTTGCTATGTTCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
77356749 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCA
77356790 TTGAGTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
Found at i:77358889 original size:143 final size:143
Alignment explanation
Indices: 77358685--77358956 Score: 438
Period size: 143 Copynumber: 1.9 Consensus size: 143
77358675 AGATACAAGT
* *
77358685 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
* * *
77358750 GTGGAACAGATTAAAGCTACAAATTATGGC-GAATCTTATTTTCCTGAAGTTATAGTGGAGCAGA
66 GTGGAACAAATTAAAGCTACAAATTATGGCAG-ATCTTATCTTCCTGAAGTTACAGTGGAGCAGA
77358814 TTGAAGCCACCAAC
130 TTGAAGCCACCAAC
* * * *
77358828 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
*
77358893 GTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
66 GTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGA
77358957 CTAAAGACAG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
143 117 0.99
144 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
GTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGAT
TGAAGCCACCAAC
Found at i:77358892 original size:45 final size:44
Alignment explanation
Indices: 77358836--77359106 Score: 173
Period size: 45 Copynumber: 5.6 Consensus size: 44
77358826 ACCTTATCTC
* *
77358836 CCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTT
1 CCTGGAGTTGCAGTGGAACAGACTAAAGACAGTGAATCTTATTT
* * * *
77358880 CTCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTT
1 C-CTGGAGTTGCAGTGGAACAGACTAAAG--AC--A--GT-G-A-ATCTTAT-TT
* *
77358935 CCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTT
1 CCTGGAGTTGCAGTGGAACAGACTAAAGACAGTGAATCTTATTT
* * * *
77358979 CTCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTT
1 C-CTGGAGTTGCAGTGGAACAGACTAAAG--AC--A--GT-G-A-ATCTTAT-TT
* * * *
77359034 CCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTT
1 CCTGGAGTTGCAGTGGAACAGACTAAAGACAGTGAATCTTATTT
* *
77359078 CCCTGGTGTTGCAGTGGAACAGATTAAAG
1 -CCTGGAGTTGCAGTGGAACAGACTAAAG
77359107 CTACAAGTTA
Statistics
Matches: 173, Mismatches: 31, Indels: 45
0.69 0.12 0.18
Matches are distributed among these distances:
44 6 0.03
45 81 0.47
46 2 0.01
47 6 0.03
48 1 0.01
49 2 0.01
50 2 0.01
51 2 0.01
52 6 0.03
53 2 0.01
54 57 0.33
55 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
CCTGGAGTTGCAGTGGAACAGACTAAAGACAGTGAATCTTATTT
Found at i:77358962 original size:54 final size:54
Alignment explanation
Indices: 77358887--77359161 Score: 205
Period size: 54 Copynumber: 5.4 Consensus size: 54
77358877 TTTCTCTGGC
*
77358887 GTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
1 GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
* * * **
77358941 GTTGCAGTGGAGCAGACTAAAG--AC--A--GT-G-A-ATCTTAT-TTCTCTGGC
1 GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTC-CTGAA
*
77358986 GTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
1 GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
* * * **
77359040 GTTGCAGTGGAGCAGACTGAAG--AC-----A--GC-GAATCTTAT-TTCCCTGGT
1 GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAG-ATCTTATCTT-CCTGAA
* * * *
77359085 GTTGCAGTGGAACAGATTAAAGCTACAAGTTATGACAAATCTTATCTTCTTGAA
1 GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
* * *
77359139 GTTGTAGTGGAGCAGATTGAAGC
1 GTTGCAGTGGAACAGATTAAAGC
77359162 CATCAGCCTT
Statistics
Matches: 168, Mismatches: 29, Indels: 48
0.69 0.12 0.20
Matches are distributed among these distances:
44 6 0.04
45 61 0.36
46 1 0.01
47 6 0.04
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
52 6 0.04
53 1 0.01
54 78 0.46
55 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (54 bp):
GTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAA
Found at i:77359160 original size:99 final size:99
Alignment explanation
Indices: 77358828--77359154 Score: 555
Period size: 99 Copynumber: 3.3 Consensus size: 99
77358818 AGCCACCAAC
*
77358828 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
77358893 GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
66 GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
77358927 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
77358992 GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
66 GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
* * * *
77359026 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGTGTTGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
* * * *
77359091 GTGGAACAGATTAAAGCTACAAGTTATGACAAAT
66 GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
* *
77359125 CTTATCTTCTTGAAGTTGTAGTGGAGCAGA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGA
77359155 TTGAAGCCAT
Statistics
Matches: 217, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 217 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (99 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATTTCTCTGGCGTTGCA
GTGGAACAAATTAAAGCTACAAATTATGGCAGAT
Found at i:77359204 original size:143 final size:143
Alignment explanation
Indices: 77359028--77359337 Score: 442
Period size: 143 Copynumber: 2.2 Consensus size: 143
77359018 TGGCAGATCT
* * * * * *
77359028 TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGTGTTGCAGT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACAAATATTATTTCCCTGGCGTTGCAGT
* * * *
77359093 GGAACAGATTAAAGCTACAAGTTATGACAAATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTG
66 GGAACAGATTAAAGCTACAAATTATGACAAATCTTATCTTCCTAAAGTTGTAGTGAAGCAGATTG
*
77359158 AAGCCATC-AGCC
131 AAGCCACCAAGCC
**
77359170 TTATCTCTTTGAAGTTGTAGTGGAGCAGACTGAAGACAACAAATATTATTTCCCTGGCGTTGCAG
1 -TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACAAATATTATTTCCCTGGCGTTGCAG
****
77359235 TGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCCTAAAGTTGTAGTGAAGCAGATT
65 TGGAACAGATTAAAGCTACAAATTATGACAAATCTTATCTTCCTAAAGTTGTAGTGAAGCAGATT
*
77359300 GAAGCCACCAATCC
130 GAAGCCACCAAGCC
77359314 TATCTCCCTGAAGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGTAGTGGAG
77359338 TGGATTAAAA
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
143 143 0.98
144 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (143 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACAAATATTATTTCCCTGGCGTTGCAGT
GGAACAGATTAAAGCTACAAATTATGACAAATCTTATCTTCCTAAAGTTGTAGTGAAGCAGATTG
AAGCCACCAAGCC
Found at i:77360738 original size:15 final size:15
Alignment explanation
Indices: 77360700--77360738 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
77360690 TAGTTATCTT
77360700 TATTATTA-TTTTAA
1 TATTATTATTTTTAA
77360714 TA-TATATATTTTTAA
1 TATTAT-TATTTTTAA
77360729 TATTATTATT
1 TATTATTATT
77360739 GCTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.14
14 4 0.18
15 12 0.55
16 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTATTTTTAA
Found at i:77360804 original size:21 final size:19
Alignment explanation
Indices: 77360663--77360800 Score: 64
Period size: 21 Copynumber: 6.7 Consensus size: 19
77360653 TCAGTCCTTC
*
77360663 TATTATTTTATT-TTTAAAT
1 TATTATTTTATTATTT-TAT
*
77360682 TATTTTTTTAGTTATCTTTAT
1 TATTATTTTA-TTAT-TTTAT
* *
77360703 TATTATTTTAATATATATAT
1 TATTATTTTATTAT-TTTAT
* * *
77360723 TTTTAATATTATTATTGCTAT
1 TATT-ATTTTATTATT-TTAT
*
77360744 TATTATTCCTATTATCTTTA-
1 TATTATT-TTATTAT-TTTAT
* *
77360764 TATTGTTTATACTTTTGTTTATT
1 TATTATTT-TA-TTAT-TTTA-T
77360787 TATTATTTTATTAT
1 TATTATTTTATTAT
77360801 GTTTCATGAT
Statistics
Matches: 88, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
19 9 0.10
20 23 0.26
21 44 0.50
22 5 0.06
23 7 0.08
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TATTATTTTATTATTTTAT
Found at i:77361092 original size:7 final size:7
Alignment explanation
Indices: 77361067--77361136 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
77361057 CGTTTTGCCC
77361067 GTTTATGG
1 GTTTAT-G
*
77361075 GTTTTAAG
1 G-TTTATG
77361083 GTTTATG
1 GTTTATG
77361090 GTTTATG
1 GTTTATG
*
77361097 GTTTTATA
1 G-TTTATG
*
77361105 GTTTAAG
1 GTTTATG
*
77361112 GTTTTAGG
1 G-TTTATG
*
77361120 GTTTAGG
1 GTTTATG
*
77361127 GTTTAGG
1 GTTTATG
77361134 GTT
1 GTT
77361137 AAAAATTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
7 34 0.64
8 15 0.28
9 4 0.08
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.51
Consensus pattern (7 bp):
GTTTATG
Found at i:77361102 original size:15 final size:15
Alignment explanation
Indices: 77361077--77361130 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
77361067 GTTTATGGGT
77361077 TTTAAGG-TTTATGG
1 TTTAAGGTTTTATGG
* *
77361091 TTTATGGTTTTATAG
1 TTTAAGGTTTTATGG
*
77361106 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTATGG
*
77361121 TTTAGGGTTT
1 TTTAAGGTTT
77361131 AGGGTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 6 0.18
15 27 0.82
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.54
Consensus pattern (15 bp):
TTTAAGGTTTTATGG
Found at i:77361102 original size:22 final size:23
Alignment explanation
Indices: 77361067--77361123 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
77361057 CGTTTTGCCC
*
77361067 GTTTATGGGTTTTA-AGGTTTATG
1 GTTTATGGGTTTTATA-GTTTAAG
77361090 GTTTAT-GGTTTTATAGTTTAAG
1 GTTTATGGGTTTTATAGTTTAAG
77361112 GTTT-TAGGGTTT
1 GTTTAT-GGGTTT
77361124 AGGGTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 17 0.57
23 12 0.40
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (23 bp):
GTTTATGGGTTTTATAGTTTAAG
Found at i:77361745 original size:6 final size:6
Alignment explanation
Indices: 77361734--77361783 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
77361724 AAAAAATAGA
* *
77361734 TTAGGG TTAGGG TTAGGG TTAGGG TTAAGG TTAAGG TTAGGG TTTAGGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG
77361783 T
1 T
77361784 GTTTTTAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:77362807 original size:21 final size:22
Alignment explanation
Indices: 77362781--77362836 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 22
77362771 AGGAAAACGC
77362781 GTCCACGTC-AGCGCGCTTTAT
1 GTCCACGTCAAGCGCGCTTTAT
77362802 GTCCACGTCGACAAAGCGCGCTTTAT
1 GTCCACGT---C-AAGCGCGCTTTAT
77362828 GTCCACGTC
1 GTCCACGTC
77362837 GACAAAGCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 8 0.27
23 1 0.03
24 1 0.03
26 20 0.67
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.25
Consensus pattern (22 bp):
GTCCACGTCAAGCGCGCTTTAT
Found at i:77362819 original size:26 final size:26
Alignment explanation
Indices: 77362790--77362848 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
77362780 CGTCCACGTC
77362790 AGCGCGCTTTATGTCCACGTCGACAA
1 AGCGCGCTTTATGTCCACGTCGACAA
77362816 AGCGCGCTTTATGTCCACGTCGACAA
1 AGCGCGCTTTATGTCCACGTCGACAA
77362842 AGCGCGC
1 AGCGCGC
77362849 CCTTGAGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.20
Consensus pattern (26 bp):
AGCGCGCTTTATGTCCACGTCGACAA
Found at i:77363095 original size:19 final size:20
Alignment explanation
Indices: 77363058--77363095 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
77363048 TCACTTGTTT
77363058 TAAAATTTATGTATTATTAC
1 TAAAATTTATGTATTATTAC
*
77363078 TAAAATTT-TGTTTTATTA
1 TAAAATTTATGTATTATTA
77363096 TGATATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TAAAATTTATGTATTATTAC
Found at i:77363857 original size:29 final size:29
Alignment explanation
Indices: 77363815--77363873 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
77363805 TCGTTTTCAA
77363815 TTAAAACATAAAAATTCCAAATCAAAACT
1 TTAAAACATAAAAATTCCAAATCAAAACT
77363844 TTAAAACATAAAAATTCCAAATCAAAACT
1 TTAAAACATAAAAATTCCAAATCAAAACT
77363873 T
1 T
77363874 ATCTTGAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (29 bp):
TTAAAACATAAAAATTCCAAATCAAAACT
Found at i:77365437 original size:20 final size:18
Alignment explanation
Indices: 77365389--77365437 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 18
77365379 CATAACTCAA
77365389 TCCATAATTTCATTCCATT
1 TCCAT-ATTTCATTCCATT
77365408 TCACATATTTCACTTCCATT
1 TC-CATATTTCA-TTCCATT
77365428 TCCATCATTT
1 TCCAT-ATTT
77365438 ACCATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (18 bp):
TCCATATTTCATTCCATT
Found at i:77371635 original size:22 final size:22
Alignment explanation
Indices: 77371592--77371635 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
77371582 TGAATGATTA
*
77371592 AAATAAAAATATTTTAAAAATT
1 AAATAAAAATATTATAAAAATT
*
77371614 AAATAATAAA-ATTATAAGAATT
1 AAATAA-AAATATTATAAAAATT
77371636 TATTGTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATAAAAATATTATAAAAATT
Found at i:77378131 original size:7 final size:7
Alignment explanation
Indices: 77378119--77378151 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
77378109 ATAATAAATA
77378119 TTTTTAT
1 TTTTTAT
77378126 TTTTTAT
1 TTTTTAT
77378133 TTTTTAT
1 TTTTTAT
77378140 TTTTTAT
1 TTTTTAT
77378147 TTTTT
1 TTTTT
77378152 TTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:77378170 original size:11 final size:11
Alignment explanation
Indices: 77378156--77378185 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
77378146 TTTTTTTTAT
77378156 TATTTTTAAAA
1 TATTTTTAAAA
77378167 TATTTTTAAAA
1 TATTTTTAAAA
77378178 TACTTTTT
1 TA-TTTTT
77378186 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:77381419 original size:3 final size:3
Alignment explanation
Indices: 77381413--77381459 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
77381403 TAAAAAAATT
* **
77381413 TAA TAA TAA TAA TAA TAG TGG TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
77381459 T
1 T
77381460 CATGATGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:77388576 original size:50 final size:50
Alignment explanation
Indices: 77388514--77388782 Score: 331
Period size: 50 Copynumber: 5.4 Consensus size: 50
77388504 CAATGTCATA
* * *** * * *
77388514 TCCCAGATATGGTCTTATATGGGGGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
** * * *
77388564 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATGCGAACGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
77388614 TCCCAAACATGGTCTTACATGGGACCTTTCACCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * *
77388664 TCCTAGACATGGTCTTACATGGAACCTCTCATTTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
77388714 TCCCAGACATGGACTTACGTGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
77388764 TTCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
77388783 CTGGCTCACA
Statistics
Matches: 182, Mismatches: 37, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 182 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:77389450 original size:25 final size:24
Alignment explanation
Indices: 77389394--77389450 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
77389384 TTCATAGTTG
* *
77389394 ATTTGAAATGGATTGATTTTGTAT
1 ATTTGAAATGGATTGATTATGTAA
*
77389418 ATTATGAAATGTATTGATTATGTAA
1 ATT-TGAAATGGATTGATTATGTAA
77389443 ATATTGAA
1 AT-TTGAA
77389451 TTGACTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 24 0.86
26 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.46
Consensus pattern (24 bp):
ATTTGAAATGGATTGATTATGTAA
Found at i:77391715 original size:16 final size:16
Alignment explanation
Indices: 77391694--77391729 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
77391684 CTGCTAATTC
77391694 GTGTATATATATATAT
1 GTGTATATATATATAT
*
77391710 GTGTATGTATATATAT
1 GTGTATATATATATAT
77391726 -TGTA
1 GTGTA
77391730 ATTTTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (16 bp):
GTGTATATATATATAT
Found at i:77395900 original size:3 final size:3
Alignment explanation
Indices: 77395894--77395922 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
77395884 CATCAATGTA
77395894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
77395923 AACTGGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:77402001 original size:126 final size:123
Alignment explanation
Indices: 77401691--77402042 Score: 524
Period size: 123 Copynumber: 2.8 Consensus size: 123
77401681 TAATTTTGAG
* * * * * * *
77401691 TTGACGTTTCTAATCAAATAGTATAAAATCACTTCTAGCAAGATGCTATTAGAGAATAATTTGTG
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAATAATTTGTA
* * *
77401756 AAATTGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTT
66 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGATCATGGATAAAATAATTTTT
*
77401814 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAATAATTTGTA
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAATAATTTGTA
* *
77401879 AAATCACACCCTCGTGGACGCGCTTTTACTACAGTAGATCATGGATAAAATAAATTTTTTT
66 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGATCATGGATAAAAT-AA--TTTTT
* *
77401940 TTTACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTG
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAATAATTTGT-
*
77402005 AAAATCGCACCCTCGTGGACACGCTTTTGCTACAGTAG
65 AAAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
77402043 CATGTTTCGG
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
123 103 0.50
124 2 0.01
126 66 0.32
127 35 0.17
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (123 bp):
TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAATAATTTGTA
AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGATCATGGATAAAATAATTTTT
Found at i:77405353 original size:522 final size:522
Alignment explanation
Indices: 77404369--77405413 Score: 2013
Period size: 522 Copynumber: 2.0 Consensus size: 522
77404359 TAAATTTTGT
77404369 TCTTAAAGGAACGTGTCATCTACCGATAACATCGGTTGTGCGAGAGACATATTTTCGTTTGGCGG
1 TCTTAAAGGAACGTGTCATCTACCGATAACATCGGTTGTGCGAGAGACATATTTTCGTTTGGCGG
* *
77404434 CGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGCAGGGAGGCCATGTATGGTGCAGT
66 CGCTATTTCCAAAGCGAGCAGCAAGTTATGCAAGCCAGATGCAGGGAGGCCATGTATGGTGCAGT
77404499 AAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGGCAAACACCATGTACACAGTGTGTCACGA
131 AAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGGCAAACACCATGTACACAGTGTGTCACGA
77404564 TCGAGACAATTTATGGTTTCACGTGGCAGAGTTTGACAGATCGCACCAAGGTGTTGTTGGGGGGC
196 TCGAGACAATTTATGGTTTCACGTGGCAGAGTTTGACAGATCGCACCAAGGTGTTGTTGGGGGGC
77404629 AATATCGTGTACACTTGCGAAATAGGACTTGTGACTGTGGGATGTTTGATGCACTTCGTTATCCA
261 AATATCGTGTACACTTGCGAAATAGGACTTGTGACTGTGGGATGTTTGATGCACTTCGTTATCCA
*
77404694 TGCGCTCATGTTATTACAGCTTGTCAGAATCTCCGTCTGGATCCGATGAGTTATGTGGACGAAGT
326 TGCGCTCATGTTATTACAGCTTGTCAGAATCTCCGTCTGGATCCGATAAGTTATGTGGACGAAGT
77404759 GTACAAATTAGAAAACATGTACAACGTCTAGAGACATGTTTTCCTACCAGTCCCAGAGGAACGTA
391 GTACAAATTAGAAAACATGTACAACGTCTAGAGACATGTTTTCCTACCAGTCCCAGAGGAACGTA
77404824 AGTGGTCGCCCGTATCTCTTGCTCCTTTTAAGCTGTTACCGGATAGAGAATTACATTGCAAACCA
456 AGTGGTCGCCCGTATCTCTTGCTCCTTTTAAGCTGTTACCGGATAGAGAATTACATTGCAAACCA
77404889 AA
521 AA
77404891 TCTTAAAGGAACGTG-CAATCTACCGATAACATCGGTTGTGCGAGAGACATATTTTCGTTTGGCG
1 TCTTAAAGGAACGTGTC-ATCTACCGATAACATCGGTTGTGCGAGAGACATATTTTCGTTTGGCG
*
77404955 GCGCTATTTCCAAAGTGAGCAGCAAGTTATGCAAGCCAGATGCAGGGAGGCCATGTATGGTGCAG
65 GCGCTATTTCCAAAGCGAGCAGCAAGTTATGCAAGCCAGATGCAGGGAGGCCATGTATGGTGCAG
77405020 TAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGGCAAACACCATGTACACAGTGTGTCACG
130 TAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGGCAAACACCATGTACACAGTGTGTCACG
77405085 ATCGAGACAATTTATGGTTTCACGTGGCAGAGTTTGACAGATCGCACCAAGGTGTTGTTGGGGGG
195 ATCGAGACAATTTATGGTTTCACGTGGCAGAGTTTGACAGATCGCACCAAGGTGTTGTTGGGGGG
77405150 CAATATCGTGTACACTTGCGAAATAGGACTTGTGACTGTGGGATGTTTGATGCACTTCGTTATCC
260 CAATATCGTGTACACTTGCGAAATAGGACTTGTGACTGTGGGATGTTTGATGCACTTCGTTATCC
*
77405215 ATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCGTCTGGATCC-AGTAAGTTATGTGGACGAA
325 ATGCGCTCATGTTATTACAGCTTGTCAGAATCTCCGTCTGGATCCGA-TAAGTTATGTGGACGAA
77405279 GTGTACAAATTAGAAAACATGTACAACGTCTAGAGACATGTTTTCCTACCAGTCCCAGAGGAACG
389 GTGTACAAATTAGAAAACATGTACAACGTCTAGAGACATGTTTTCCTACCAGTCCCAGAGGAACG
77405344 TAAGTGGTCGCCCGTATCTCTTGCTCCTTTTAAGCTGTTACCGGATAGAGAATTACATTGCAAAC
454 TAAGTGGTCGCCCGTATCTCTTGCTCCTTTTAAGCTGTTACCGGATAGAGAATTACATTGCAAAC
77405409 CAAA
519 CAAA
77405413 T
1 T
77405414 GGTCGACCTT
Statistics
Matches: 516, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
521 2 0.00
522 514 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (522 bp):
TCTTAAAGGAACGTGTCATCTACCGATAACATCGGTTGTGCGAGAGACATATTTTCGTTTGGCGG
CGCTATTTCCAAAGCGAGCAGCAAGTTATGCAAGCCAGATGCAGGGAGGCCATGTATGGTGCAGT
AAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGGCAAACACCATGTACACAGTGTGTCACGA
TCGAGACAATTTATGGTTTCACGTGGCAGAGTTTGACAGATCGCACCAAGGTGTTGTTGGGGGGC
AATATCGTGTACACTTGCGAAATAGGACTTGTGACTGTGGGATGTTTGATGCACTTCGTTATCCA
TGCGCTCATGTTATTACAGCTTGTCAGAATCTCCGTCTGGATCCGATAAGTTATGTGGACGAAGT
GTACAAATTAGAAAACATGTACAACGTCTAGAGACATGTTTTCCTACCAGTCCCAGAGGAACGTA
AGTGGTCGCCCGTATCTCTTGCTCCTTTTAAGCTGTTACCGGATAGAGAATTACATTGCAAACCA
AA
Found at i:77405713 original size:20 final size:20
Alignment explanation
Indices: 77405688--77405731 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
77405678 TGAATGTAAA
77405688 ATTATTATCCGATAAATTGT
1 ATTATTATCCGATAAATTGT
77405708 ATTATTATCCGATAAATTGT
1 ATTATTATCCGATAAATTGT
77405728 ATTA
1 ATTA
77405732 ATTGTTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (20 bp):
ATTATTATCCGATAAATTGT
Found at i:77405849 original size:17 final size:16
Alignment explanation
Indices: 77405820--77405868 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
77405810 TATGTGAATG
77405820 TTAAGGGTTAGGGTTT
1 TTAAGGGTTAGGGTTT
77405836 TTAAGGGTTTAGGG---
1 TTAAGGG-TTAGGGTTT
77405850 TT-AGGGTTAGGGTTT
1 TTAAGGGTTAGGGTTT
77405865 TTAA
1 TTAA
77405869 TTTAATTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 2 0.07
15 2 0.07
16 8 0.29
17 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (16 bp):
TTAAGGGTTAGGGTTT
Found at i:77405881 original size:23 final size:23
Alignment explanation
Indices: 77405854--77406070 Score: 250
Period size: 23 Copynumber: 9.5 Consensus size: 23
77405844 TTAGGGTTAG
77405854 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
* *
77405877 GGTTAGGGTTTTCAAGTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
77405900 GTTTAGGG-------TTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
77405916 GGTTAGAGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
77405939 GGTTAGGGTTTTCAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
77405962 GGTTAGGGTTTTCTTTTCAATTTAATTA
1 GGTTAGGG---T-TTTT-AATTTAATTA
** *
77405990 GGTTAGGGTTTAGAGTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
77406013 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
* *
77406036 GGTTAGAGTTTTCAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
77406059 GGTTAGGGTTTT
1 GGTTAGGGTTTT
77406071 CTTTTCAATT
Statistics
Matches: 164, Mismatches: 18, Indels: 24
0.80 0.09 0.12
Matches are distributed among these distances:
16 13 0.08
23 126 0.77
24 2 0.01
25 1 0.01
26 1 0.01
27 3 0.02
28 18 0.11
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.49
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTTAATTA
Found at i:77405912 original size:16 final size:16
Alignment explanation
Indices: 77405893--77405926 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77405883 GGTTTTCAAG
* *
77405893 TTAATTAGTTTAGGGT
1 TTAATTAGGTTAGAGT
77405909 TTAATTAGGTTAGAGT
1 TTAATTAGGTTAGAGT
77405925 TT
1 TT
77405927 TTAATTTAAT
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:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
TTAATTAGGTTAGAGT
Found at i:77405915 original size:39 final size:39
Alignment explanation
Indices: 77405869--77405949 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
77405859 GGGTTTTTAA
* *
77405869 TTTAATTAGGTTAGGGTTTTCAAGTTAATTAGTTTAGGG
1 TTTAATTAGGTTAGAGTTTTCAAGTTAATTAGGTTAGGG
* *
77405908 TTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGG
1 TTTAATTAGGTTAGAGTTTTCAAGTTAATTAGGTTAGGG
77405947 TTT
1 TTT
77405950 TCAATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.49
Consensus pattern (39 bp):
TTTAATTAGGTTAGAGTTTTCAAGTTAATTAGGTTAGGG
Found at i:77405932 original size:62 final size:62
Alignment explanation
Indices: 77405854--77405972 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 62
77405844 TTAGGGTTAG
* *
77405854 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAAGTTAATTAGTTTAGGGTTTAATTA
1 GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTCAAGTTAATTAGGTTAGGGTTTAATTA
*
77405916 GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTCAATTTAATTAGGTTAGGGTTT
1 GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTCAAGTTAATTAGGTTAGGGTTT
77405973 TCTTTTCAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (62 bp):
GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTCAAGTTAATTAGGTTAGGGTTTAATTA
Found at i:77405945 original size:28 final size:28
Alignment explanation
Indices: 77405916--77406092 Score: 124
Period size: 23 Copynumber: 7.0 Consensus size: 28
77405906 GGTTTAATTA
*
77405916 GGTTAGAGTTTTTAATTTAATTAGGTTA-
1 GGTT-GAGTTTTCAATTTAATTAGGTTAG
77405944 -G--G-GTTTTCAATTTAATTAGGTTAG
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
***
77405968 GGTTTTCTTTTCAATTTAATTAGGTTAG
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
* *
77405996 GGTTTAG-----AGTTTAATTAGGTTAG
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
77406019 GG-T---TTTT-AATTTAATTAGGTTA-
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
77406041 ----GAGTTTTCAATTTAATTAGGTTAG
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
***
77406065 GGTTTTCTTTTCAATTTAATTAGGTTAG
1 GGTTGAGTTTTCAATTTAATTAGGTTAG
77406093 TACAATTCTC
Statistics
Matches: 121, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
22 5 0.04
23 66 0.55
24 1 0.01
25 1 0.01
27 1 0.01
28 47 0.39
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.50
Consensus pattern (28 bp):
GGTTGAGTTTTCAATTTAATTAGGTTAG
Done.