Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 95 of 203
Found at i:29914748 original size:28 final size:28
Alignment explanation
Indices: 29914708--29914767 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
29914698 TAATAGTGAC
29914708 ATGTTGCCATCATTGGAAGGTGGGGTTA
1 ATGTTGCCATCATTGGAAGGTGGGGTTA
29914736 ATGTTGCCATCATTGGAAGGTGGGGTTA
1 ATGTTGCCATCATTGGAAGGTGGGGTTA
29914764 ATGT
1 ATGT
29914768 GCATGTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.35, T:0.33
Consensus pattern (28 bp):
ATGTTGCCATCATTGGAAGGTGGGGTTA
Found at i:29920018 original size:40 final size:39
Alignment explanation
Indices: 29919987--29920196 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
29919977 GGACTAAGAT
* *
29919987 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
29920027 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
29920067 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
29920107 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
29920147 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
29920186 CCGAAGGCATT
1 CCGAAGGCATT
29920197 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:29920150 original size:120 final size:120
Alignment explanation
Indices: 29919934--29920196 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
29919924 TTGAATGCTG
* *
29919934 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
29919998 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
29920054 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
29920117 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
29920173 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29920197 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:29920216 original size:79 final size:80
Alignment explanation
Indices: 29919935--29920231 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
29919925 TGAATGCTGT
* ** * * * **
29919935 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
29919998 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
29920015 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
29920079 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
29920095 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
29920159 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
29920174 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
29920232 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:29927968 original size:40 final size:39
Alignment explanation
Indices: 29927937--29928146 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
29927927 GGACTAAGAT
* *
29927937 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
29927977 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
29928017 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
29928057 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
29928097 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
29928136 CCGAAGGCATT
1 CCGAAGGCATT
29928147 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:29928100 original size:120 final size:120
Alignment explanation
Indices: 29927884--29928146 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
29927874 TTGAATGCTG
* *
29927884 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
29927948 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
29928004 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
29928067 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
29928123 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29928147 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:29928166 original size:79 final size:80
Alignment explanation
Indices: 29927885--29928181 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
29927875 TGAATGCTGT
* ** * * * **
29927885 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
29927948 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
29927965 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
29928029 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
29928045 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
29928109 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
29928124 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
29928182 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:29940824 original size:19 final size:19
Alignment explanation
Indices: 29940772--29940816 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
29940762 TGCCTCTTTT
*
29940772 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCA-TCATA
29940791 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
29940810 TGCATTA
1 TGCATTA
29940817 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:29945036 original size:51 final size:50
Alignment explanation
Indices: 29944904--29945091 Score: 243
Period size: 51 Copynumber: 3.7 Consensus size: 50
29944894 TATCATTTGA
* *
29944904 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAC-CTTCGG
*
29944954 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTT-CGG
* * * ** * *
29945005 TACACATAGTAGCTTGCACATAGTACTACACATGTGACCATTATCTATCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCGG
*
29945056 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
29945092 TTTATAGGCA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
50 39 0.32
51 80 0.67
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCGG
Found at i:29952706 original size:11 final size:12
Alignment explanation
Indices: 29952672--29952711 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
29952662 GGTTAATAAG
29952672 ATTCACCTTCAC
1 ATTCACCTTCAC
*
29952684 TTTCACCTTCAC
1 ATTCACCTTCAC
29952696 ATTCA-CTTCAC
1 ATTCACCTTCAC
29952707 ATTCA
1 ATTCA
29952712 TCCTACCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTCACCTTCAC
Found at i:29962136 original size:32 final size:32
Alignment explanation
Indices: 29962083--29962413 Score: 440
Period size: 32 Copynumber: 10.4 Consensus size: 32
29962073 AAATGGCAAC
* *
29962083 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
29962114 AAGCCATCAGTAACAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
29962146 CAGCCATCAGTAAC-GATAATATGA-CAGGCACA
1 AAGCCATCAGTAACAG-TAATATGATC-GGCACA
29962178 AAGCCATCAGTAACAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
29962210 AAGCCAGCAGTAACGGTAATATGATCGGAACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
29962242 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
29962274 CAA-CCATCAGTAACGGTAATATGATAC-GCACA
1 -AAGCCATCAGTAACAGTAATATGAT-CGGCACA
*
29962306 AAGCCATCAGTAACAGTAAAATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
29962338 AAGCCATCAGTAA-TGATAAAATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
*
29962370 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
29962402 AAGCCATCAGTA
1 AAGCCATCAGTA
29962414 GCATTGCAGC
Statistics
Matches: 267, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.06
32 246 0.92
33 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:29962581 original size:24 final size:24
Alignment explanation
Indices: 29962554--29962600 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
29962544 GGCTCAGAAT
*
29962554 CAGTGATACAAATCACAGACAAAG
1 CAGTCATACAAATCACAGACAAAG
* *
29962578 CAGTCATACCAATCATAGACAAA
1 CAGTCATACAAATCACAGACAAA
29962601 TCAATCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (24 bp):
CAGTCATACAAATCACAGACAAAG
Found at i:29962608 original size:24 final size:24
Alignment explanation
Indices: 29962559--29962608 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
29962549 AGAATCAGTG
*
29962559 ATACAAATCACAGACAAAGCAGTC
1 ATACAAATCACAGACAAAGCAATC
* * *
29962583 ATACCAATCATAGACAAATCAATC
1 ATACAAATCACAGACAAAGCAATC
29962607 AT
1 AT
29962609 TTACCCTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (24 bp):
ATACAAATCACAGACAAAGCAATC
Found at i:29967645 original size:26 final size:26
Alignment explanation
Indices: 29967616--29967679 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
29967606 TGACCTACAA
29967616 CTTGTGTAAGCAGACCCATTTCACAG
1 CTTGTGTAAGCAGACCCATTTCACAG
* * *
29967642 CTTGTGTGAGCATACCTATTTCACAG
1 CTTGTGTAAGCAGACCCATTTCACAG
*
29967668 CTCGTGTAAGCA
1 CTTGTGTAAGCA
29967680 ACTATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (26 bp):
CTTGTGTAAGCAGACCCATTTCACAG
Found at i:29970066 original size:50 final size:50
Alignment explanation
Indices: 29969964--29970197 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 50
29969954 GGGAATGAGA
* **
29969964 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGG
*
29970020 TCCCATGTAAGACCATGTCTGCGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
29970070 TCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * **
29970120 TCCCATGTAAGAACATATCTGGGATATGACATTGGCA--GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
29970169 TCCCATGTAAGACCATGTCTGGGACATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
29970198 GTTTGGCATG
Statistics
Matches: 148, Mismatches: 29, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 30 0.20
50 79 0.53
52 1 0.01
53 3 0.02
56 34 0.23
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:29970432 original size:20 final size:20
Alignment explanation
Indices: 29970407--29970455 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29970397 TGAGTTAGTT
29970407 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
29970427 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
29970447 AAG-AAGCAA
1 AAGTAAGCAA
29970456 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:29970681 original size:20 final size:20
Alignment explanation
Indices: 29970656--29970704 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29970646 TGAGTTATTT
29970656 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
29970676 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
29970696 AAG-AAGCAA
1 AAGTAAGCAA
29970705 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:29970728 original size:249 final size:249
Alignment explanation
Indices: 29970290--29970789 Score: 991
Period size: 249 Copynumber: 2.0 Consensus size: 249
29970280 TACATGAAAG
29970290 TTAAGGTAAAAGCATAACAAATAGATTCAGGTGAGTTATGAGGGTTAAGAATATTTCAGTTATCA
1 TTAAGGTAAAAGCATAACAAATAGATTCAGGTGAGTTATGAGGGTTAAGAATATTTCAGTTATCA
29970355 GTTGAGAAAGAAATTTCAGCAAGGGAGGAGAATTTATAATCATGAGTTAGTTAAGTAAGCAAGTA
66 GTTGAGAAAGAAATTTCAGCAAGGGAGGAGAATTTATAATCATGAGTTAGTTAAGTAAGCAAGTA
29970420 AGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAGCAAAGACCATGATACTTGATGATAATTTATTA
131 AGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAGCAAAGACCATGATACTTGATGATAATTTATTA
29970485 CTATAATTATTTATGATAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGC
196 CTATAATTATTTATGATAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGC
29970539 TTAAGGTAAAAGCATAACAAATAGATTCAGGTGAGTTATGAGGGTTAAGAATATTTCAGTTATCA
1 TTAAGGTAAAAGCATAACAAATAGATTCAGGTGAGTTATGAGGGTTAAGAATATTTCAGTTATCA
*
29970604 GTTGAGAAAGAAATTTCAGCAAGGGAGGAGAATTTATAATCATGAGTTATTTAAGTAAGCAAGTA
66 GTTGAGAAAGAAATTTCAGCAAGGGAGGAGAATTTATAATCATGAGTTAGTTAAGTAAGCAAGTA
29970669 AGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAGCAAAGACCATGATACTTGATGATAATTTATTA
131 AGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAGCAAAGACCATGATACTTGATGATAATTTATTA
29970734 CTATAATTATTTATGATAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGC
196 CTATAATTATTTATGATAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGC
29970788 TT
1 TT
29970790 TACACTTACT
Statistics
Matches: 250, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 250 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (249 bp):
TTAAGGTAAAAGCATAACAAATAGATTCAGGTGAGTTATGAGGGTTAAGAATATTTCAGTTATCA
GTTGAGAAAGAAATTTCAGCAAGGGAGGAGAATTTATAATCATGAGTTAGTTAAGTAAGCAAGTA
AGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAGCAAAGACCATGATACTTGATGATAATTTATTA
CTATAATTATTTATGATAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGC
Found at i:29990082 original size:13 final size:13
Alignment explanation
Indices: 29990066--29990096 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
29990056 AGGTCGTGGA
29990066 GTGCTAGGCAAAG
1 GTGCTAGGCAAAG
29990079 GTGCTAGGCAAAG
1 GTGCTAGGCAAAG
29990092 GTGCT
1 GTGCT
29990097 GGTCCTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.39, T:0.19
Consensus pattern (13 bp):
GTGCTAGGCAAAG
Found at i:29994886 original size:26 final size:26
Alignment explanation
Indices: 29994857--29994906 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
29994847 CTTTCCTACG
* * *
29994857 ATACTGTTACTGGTAGCTTTGTTGTA
1 ATACTATTACTGGCAGCCTTGTTGTA
29994883 ATACTATTACTGGCAGCCTTGTTG
1 ATACTATTACTGGCAGCCTTGTTG
29994907 CGATATTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (26 bp):
ATACTATTACTGGCAGCCTTGTTGTA
Found at i:29998686 original size:14 final size:15
Alignment explanation
Indices: 29998652--29998690 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
29998642 TCAGTAGAGC
29998652 TTCA-TATCTTGGAT
1 TTCATTATCTTGGAT
29998666 TTCATTATCTTGG-T
1 TTCATTATCTTGGAT
*
29998680 TTTATTATCTT
1 TTCATTATCTT
29998691 TCTTATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (15 bp):
TTCATTATCTTGGAT
Found at i:30004902 original size:24 final size:24
Alignment explanation
Indices: 30004858--30004903 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30004848 TTTTCTTTAG
* *
30004858 GATCTTCTTCTAGGTCATCCTCCA
1 GATCTTCTTCAAAGTCATCCTCCA
*
30004882 GATCTTCTTCAAAGTCTTCCTC
1 GATCTTCTTCAAAGTCATCCTC
30004904 TATATCCTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (24 bp):
GATCTTCTTCAAAGTCATCCTCCA
Found at i:30010288 original size:9 final size:9
Alignment explanation
Indices: 30010274--30010311 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
30010264 TTTGATTCAC
30010274 GAACTCTAT
1 GAACTCTAT
30010283 GAACTCTAT
1 GAACTCTAT
30010292 GAACTCTAT
1 GAACTCTAT
30010301 GAACTCTAT
1 GAACTCTAT
30010310 GA
1 GA
30010312 GCCTTCCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (9 bp):
GAACTCTAT
Found at i:30025180 original size:11 final size:13
Alignment explanation
Indices: 30025160--30025191 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30025150 AATAAATTAA
30025160 TAAAATATCAT-T
1 TAAAATATCATAT
30025172 TAAAA-ATCATAT
1 TAAAATATCATAT
30025184 TAAAATAT
1 TAAAATAT
30025192 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:30026164 original size:11 final size:13
Alignment explanation
Indices: 30026140--30026171 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30026130 TAGTTTATTA
30026140 ATATTTTAATATG
1 ATATTTTAATATG
30026153 AT-TTTTAA-ATG
1 ATATTTTAATATG
30026164 ATATTTTA
1 ATATTTTA
30026172 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:30030818 original size:23 final size:22
Alignment explanation
Indices: 30030792--30030837 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
30030782 TGAATTTATA
30030792 AGTTA-TGAAACTAGAAAAAAATT
1 AGTTACTG-AACTA-AAAAAAATT
*
30030815 AGTTACTGAATTAAAAAAAATT
1 AGTTACTGAACTAAAAAAAATT
30030837 A
1 A
30030838 CATCAACAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 9 0.43
24 2 0.10
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (22 bp):
AGTTACTGAACTAAAAAAAATT
Found at i:30032801 original size:19 final size:20
Alignment explanation
Indices: 30032765--30032833 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
30032755 TAATATTAGT
* *
30032765 AATAATAACAATATAAAAAA
1 AATAATAATAAAATAAAAAA
30032785 AATAA-AATAAAATAAAAAA
1 AATAATAATAAAATAAAAAA
* * *
30032804 GATAATATTAAAAT-AATAA
1 AATAATAATAAAATAAAAAA
30032823 AATAATAATAA
1 AATAATAATAA
30032834 CAAATGAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (20 bp):
AATAATAATAAAATAAAAAA
Found at i:30033733 original size:30 final size:30
Alignment explanation
Indices: 30033697--30033773 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
30033687 TGACTCGCCA
* *
30033697 GTGTGTCTAGGCTGTGTATCATACACGACC
1 GTGTGTCTAGGCTGTGTATCACACACAACC
* * *
30033727 GTGTGTCCAGGCCGTGTATCACACACAACT
1 GTGTGTCTAGGCTGTGTATCACACACAACC
*
30033757 GTGTCTCTAGGCTGTGT
1 GTGTGTCTAGGCTGTGT
30033774 GATTCACCCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (30 bp):
GTGTGTCTAGGCTGTGTATCACACACAACC
Found at i:30035743 original size:27 final size:27
Alignment explanation
Indices: 30035713--30035907 Score: 273
Period size: 27 Copynumber: 7.1 Consensus size: 27
30035703 TATAATAATA
* *
30035713 ATTTTACCTTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
30035740 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
30035767 ATTTTACCCTATAGGGGGCATTTCGATC
1 ATTTTACCCTAT-GGGGGTATTTCGGTC
*
30035795 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
30035822 ATTTTACCCTATGAGGGGTATTTCAGTC
1 ATTTTACCCTATG-GGGGTATTTCGGTC
**
30035850 ATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
30035877 ATTTTACCCTATGGGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
30035904 ATTT
1 ATTT
30035908 ATTGACCTCT
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
27 103 0.67
28 50 0.33
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:30035804 original size:55 final size:54
Alignment explanation
Indices: 30035713--30035907 Score: 284
Period size: 55 Copynumber: 3.6 Consensus size: 54
30035703 TATAATAATA
* ** *
30035713 ATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
* * *
30035767 ATTTTACCCTATAGGGGGCATTTC-GATCATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTAT-GGGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTCGATC
*
30035822 ATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATG-GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
30035877 ATTTTACCCTATGGGGGTATTTCAGTCATTT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTT
30035908 ATTGACCTCT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
54 31 0.24
55 95 0.75
56 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
Found at i:30035808 original size:82 final size:82
Alignment explanation
Indices: 30035713--30035907 Score: 313
Period size: 82 Copynumber: 2.4 Consensus size: 82
30035703 TATAATAATA
*
30035713 ATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTAT-AGGGGTATTTC-GATCATTTTACCC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAG-TCATTTTACCC
*
30035776 TATAGGGGGCATTTCGATC
65 TAT-GGGGGCATTTCAATC
30035795 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
*
30035860 ATGGGGGTATTTCAATC
66 ATGGGGGCATTTCAATC
**
30035877 ATTTTACCCTATGGGGGTATTTCAGTCATTT
1 ATTTTACCCTATGGGGGTATTTTGGTCATTT
30035908 ATTGACCTCT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
82 80 0.75
83 25 0.24
84 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (82 bp):
ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
ATGGGGGCATTTCAATC
Found at i:30043608 original size:20 final size:19
Alignment explanation
Indices: 30043579--30043619 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
30043569 GAACAAATGA
30043579 AATTAAAAAAATTATGTCTT
1 AATTAAAAAAATTAT-TCTT
* *
30043599 AATTAGAAAATTTATTCTT
1 AATTAAAAAAATTATTCTT
30043618 AA
1 AA
30043620 CAAATTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAAAAAAATTATTCTT
Found at i:30054527 original size:14 final size:15
Alignment explanation
Indices: 30054506--30054539 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30054496 ATTAGAATGT
30054506 AAAA-ATTAAA-TAA
1 AAAATATTAAATTAA
30054519 AAAATATTAAATTAA
1 AAAATATTAAATTAA
30054534 AAAATA
1 AAAATA
30054540 AATATGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 6 0.32
15 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATTAAATTAA
Found at i:30054530 original size:19 final size:19
Alignment explanation
Indices: 30054508--30054544 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30054498 TAGAATGTAA
30054508 AAATTAAATAAA-AAATATT
1 AAATTAAA-AAATAAATATT
30054527 AAATTAAAAAATAAATAT
1 AAATTAAAAAATAAATAT
30054545 GGCTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATTAAAAAATAAATATT
Found at i:30054534 original size:26 final size:27
Alignment explanation
Indices: 30054490--30054543 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
30054480 ACAATCAAAC
*
30054490 AAAAAAATTAGAATGTAAAAATTAAAT
1 AAAAAAATTAGAATGTAAAAAATAAAT
30054517 AAAAAATATTA-AAT-TAAAAAATAAAT
1 AAAAAA-ATTAGAATGTAAAAAATAAAT
30054543 A
1 A
30054544 TGGCTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 12 0.48
27 9 0.36
28 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (27 bp):
AAAAAAATTAGAATGTAAAAAATAAAT
Found at i:30059261 original size:35 final size:35
Alignment explanation
Indices: 30059215--30059286 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
30059205 TACGATGTTA
*
30059215 GACCATAGATGAAAGATGCTATGACAACAAGGTAT
1 GACCATAGATGAAAAATGCTATGACAACAAGGTAT
*
30059250 GACCATAGATGAAAAATTCTATGACAACAAGGTAT
1 GACCATAGATGAAAAATGCTATGACAACAAGGTAT
30059285 GA
1 GA
30059287 TGAGTAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (35 bp):
GACCATAGATGAAAAATGCTATGACAACAAGGTAT
Found at i:30096414 original size:18 final size:17
Alignment explanation
Indices: 30096360--30096422 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 17
30096350 ACTATACTAA
*
30096360 AAAT-AATAAT-AAAGG
1 AAATAAATAATAAAAGT
*
30096375 AAAT-AA-AAGAAAAGT
1 AAATAAATAATAAAAGT
30096390 AAATAAATAAATAAAAG-
1 AAATAAAT-AATAAAAGT
30096407 AAATTAAATAATAAAA
1 AAA-TAAATAATAAAA
30096423 TATGTATCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 2 0.05
15 14 0.35
16 2 0.05
17 10 0.25
18 12 0.30
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (17 bp):
AAATAAATAATAAAAGT
Found at i:30096424 original size:22 final size:23
Alignment explanation
Indices: 30096375--30096421 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30096365 ATAATAAAGG
30096375 AAATAAAAGAAAAGTAAATAAAT
1 AAATAAAAGAAAAGTAAATAAAT
*
30096398 AAATAAAAG-AAATTAAAT-AAT
1 AAATAAAAGAAAAGTAAATAAAT
30096419 AAA
1 AAA
30096422 ATATGTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
AAATAAAAGAAAAGTAAATAAAT
Found at i:30101345 original size:16 final size:16
Alignment explanation
Indices: 30101321--30101354 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
30101311 TTTTGGCGGC
30101321 ATAGCGTGAATGGTGT
1 ATAGCGTGAATGGTGT
*
30101337 ATAGTGTGAATGGTGT
1 ATAGCGTGAATGGTGT
30101353 AT
1 AT
30101355 GGTCTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.35, T:0.35
Consensus pattern (16 bp):
ATAGCGTGAATGGTGT
Found at i:30103587 original size:20 final size:20
Alignment explanation
Indices: 30103562--30103613 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
30103552 GAAAATCATT
*
30103562 TTAAAATGATTTTAACTTGG
1 TTAAAATCATTTTAACTTGG
*
30103582 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTGG
30103602 TTAAAATCATTT
1 TTAAAATCATTT
30103614 GCACTTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGG
Found at i:30103619 original size:20 final size:19
Alignment explanation
Indices: 30103562--30103620 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
30103552 GAAAATCATT
* *
30103562 TTAAAATGATTTTAACTTGG
1 TTAAAATCA-TTTGACTTGG
30103582 TTAAAATCATTTTGACTTGG
1 TTAAAATCA-TTTGACTTGG
30103602 TTAAAATCATTTGCACTTG
1 TTAAAATCATTTG-ACTTG
30103621 ATTTTAGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (19 bp):
TTAAAATCATTTGACTTGG
Found at i:30119178 original size:79 final size:82
Alignment explanation
Indices: 30119067--30119251 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
30119057 GCTACTCGTT
* *
30119067 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
30119130 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
30119147 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30119210 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30119227 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30119252 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30119251 original size:40 final size:40
Alignment explanation
Indices: 30119048--30119251 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
30119038 CGGAATTTAA
** *
30119048 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30119088 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30119128 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30119167 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30119207 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30119247 CCGGA
1 CCGGA
30119252 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30127835 original size:101 final size:101
Alignment explanation
Indices: 30127696--30127896 Score: 357
Period size: 101 Copynumber: 2.0 Consensus size: 101
30127686 TTTATGTTTA
*
30127696 TAACTTAAATCTATTCATTGTCTCTACTTTTGTGATATATTAGATATTTTTGGCGTCACTCATAA
1 TAACTTAAATCTATTCATTGTCTCTACTTGTGTGATATATTAGATATTTTTGGCGTCACTCATAA
*
30127761 TCTTTGATGATCCTTACCACCATGTTCAATTTTTTG
66 TCTTCGATGATCCTTACCACCATGTTCAATTTTTTG
**
30127797 TAACTTAAATCTATTCATTGTCTCTACTTGTGTGATATATTAGATATTTTTGGCGTCGTTCATAA
1 TAACTTAAATCTATTCATTGTCTCTACTTGTGTGATATATTAGATATTTTTGGCGTCACTCATAA
*
30127862 TCTTCGATGATCCTTACCACCATGTTCGATTTTTT
66 TCTTCGATGATCCTTACCACCATGTTCAATTTTTT
30127897 ATTTATCAAG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (101 bp):
TAACTTAAATCTATTCATTGTCTCTACTTGTGTGATATATTAGATATTTTTGGCGTCACTCATAA
TCTTCGATGATCCTTACCACCATGTTCAATTTTTTG
Found at i:30130197 original size:15 final size:16
Alignment explanation
Indices: 30130166--30130199 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30130156 TTCAATTGTC
30130166 TTTTCTAGGATTAGAA
1 TTTTCTAGGATTAGAA
*
30130182 TTTTCT-GGATTTGAA
1 TTTTCTAGGATTAGAA
30130197 TTT
1 TTT
30130200 CAATTGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTTCTAGGATTAGAA
Found at i:30136187 original size:44 final size:44
Alignment explanation
Indices: 30136139--30136389 Score: 143
Period size: 44 Copynumber: 5.6 Consensus size: 44
30136129 TTTTAATTCA
*
30136139 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTG
* * * * * * * *
30136183 CTCCACTGCAACTTTATGGATATAAGGTTTG-AT-AT-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTG
* * * * ** * *
30136224 CTCTACTACAACTTTAGAGAGATAAGATCTATAATTTATAGCTTCTATCAG
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-T-GGTT-T--CTTCAATCTG
* * * * *
30136275 TTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GGTTTCTTCAATCTG
* **
30136320 CTCTACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTTCAATC-TG
*
30136364 CTCCACTACAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
30136390 GTTTGCTATG
Statistics
Matches: 153, Mismatches: 42, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
41 26 0.17
42 1 0.01
43 3 0.02
44 59 0.39
45 31 0.20
46 2 0.01
47 2 0.01
48 2 0.01
49 1 0.01
50 1 0.01
51 25 0.16
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTG
Found at i:30136243 original size:129 final size:135
Alignment explanation
Indices: 30136075--30136333 Score: 332
Period size: 129 Copynumber: 1.9 Consensus size: 135
30136065 TTTCAAGGAA
* * * *
30136075 ATAAGGTCTGATGTGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCCATCATTT-TA-ATTC
1 ATAAGGTCTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCCATAATTTATAGATTC
* * * *
30136138 -A-C-TCCACTGCAACTTCAGGGAGATAGGATT-GGTTTCTTCAATCTGCTCCACTGCAACTTTA
66 TATCATCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTA
30136199 TGGAT
131 TGGAT
* * * *
30136204 ATAAGGTTTGATATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTATAATTTATAGCTTC
1 ATAAGGTCTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCCATAATTTATAGATTC
* *
30136269 TATCAGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTT
66 TATCA--TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTT
30136334 CAGGGAGATA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
129 50 0.46
130 2 0.02
131 3 0.03
132 1 0.01
133 1 0.01
136 26 0.24
137 25 0.23
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (135 bp):
ATAAGGTCTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCCATAATTTATAGATTC
TATCATCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTA
TGGAT
Found at i:30136341 original size:181 final size:180
Alignment explanation
Indices: 30136139--30136568 Score: 535
Period size: 181 Copynumber: 2.4 Consensus size: 180
30136129 TTTTAATTCA
* ** *
30136139 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTTATGGAT
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GTAACTTCAATCTGCTCCACTGCAACTTTATGGAG
* * *
30136204 ATAAGGTTTGATATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTATAATTTATAGCTTC
65 ATAAGGTTTGATATGATCTACTCTACTACAACTTCAGAGAGATAAGATCTACAATTTATAGC-TC
* *
30136269 T-ATC-AGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTG
129 TAACCTA-TTCCACTGCAACTTCAGGGAAATAACATTCGCTATCTTCAGTCTG
* * * *
30136320 CTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA-CTTGCTCCACTACAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTCAATC-TGCTCCACTGCAACTTTATGGA
* * ** *
30136384 GATAAGGTTTGCTATGATCTACTCTATTGTAACTTCAGAGAGATAAGATCTGCAATTTATAGCTC
64 GATAAGGTTTGATATGATCTACTCTACTACAACTTCAGAGAGATAAGATCTACAATTTATAGCTC
* * * *
30136449 TAACCTATTCCGCTGCCACTTCAGGGGAATAACATTTGCTATCTTCAGTCTG
129 TAACCTATTCCACTGCAACTTCAGGGAAATAACATTCGCTATCTTCAGTCTG
* * * * * *
30136501 CTCCACTGCAACTTCAGGAAGATAAAACT-TCACTTCAATCCGCTCTACTGCAACTTTATGGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTAACTTCAATCTGCTCCACTGCAACTTTATGGAGA
30136565 TAAG
66 TAAG
30136569 ATTATTGGCT
Statistics
Matches: 212, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
179 31 0.15
180 6 0.03
181 172 0.81
182 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (180 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGTAACTTCAATCTGCTCCACTGCAACTTTATGGAGA
TAAGGTTTGATATGATCTACTCTACTACAACTTCAGAGAGATAAGATCTACAATTTATAGCTCTA
ACCTATTCCACTGCAACTTCAGGGAAATAACATTCGCTATCTTCAGTCTG
Found at i:30136344 original size:96 final size:96
Alignment explanation
Indices: 30136220--30136525 Score: 282
Period size: 96 Copynumber: 3.3 Consensus size: 96
30136210 TTTGATATGA
* * *
30136220 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTATAATTTATAGCTTCTATC-AGTTCCACTGC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TAATTTATAGCTTCTAACTAGTTCCACTGC
*
30136284 AACTTCAGGGAAATAAGATTCGCTATCTTCAG
65 AACTTCAGGGAAATAAGATTTGCTATCTTCAG
* * * * *
30136316 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-C-T--TGTA-A-CTTC-AACTTGCTCCACTACA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTAATTTATAGCTTCTAACTAGTTCCACTGCA
* * *
30136374 ACTTCAGGGAGATAAGGTTTGCTA---TGA-
66 ACTTCAGGGAAATAAGATTTGCTATCTTCAG
* * * * *
30136401 TCTACTCTATTGTAACTTCAGAGAGATAAGATCTGCAATTTATAGC-TCTAACCTA-TTCCGCTG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TAATTTATAGCTTCTAA-CTAGTTCCACTG
* * *
30136464 CCACTTCAGGGGAATAACATTTGCTATCTTCAG
64 CAACTTCAGGGAAATAAGATTTGCTATCTTCAG
*
30136497 TCTGCTCCACTGCAACTTCAG-GAAGATAA
1 TCTGCTCTACTGCAACTTCAGAG-AGATAA
30136526 AACTTCACTT
Statistics
Matches: 163, Mismatches: 32, Indels: 30
0.72 0.14 0.13
Matches are distributed among these distances:
85 27 0.17
86 3 0.02
88 2 0.01
89 34 0.21
90 4 0.02
91 6 0.04
92 29 0.18
93 3 0.02
95 4 0.02
96 51 0.31
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (96 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTAATTTATAGCTTCTAACTAGTTCCACTGCA
ACTTCAGGGAAATAAGATTTGCTATCTTCAG
Found at i:30146461 original size:3 final size:3
Alignment explanation
Indices: 30146455--30146530 Score: 73
Period size: 3 Copynumber: 24.3 Consensus size: 3
30146445 TAGTTTTTTA
* * *
30146455 TAT TAT TAA TAT TGT TAT TGCAT CAT TAT TAT TA- TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TA-T TAT
*
30146502 TATT TAT TAT TAT TAT TAT CAT TAT TAT T
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
30146531 TCTATACACA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.03
3 50 0.83
4 6 0.10
5 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:30146526 original size:25 final size:25
Alignment explanation
Indices: 30146480--30146531 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
30146470 TATTGCATCA
*
30146480 TTATTATTATATTATTATTTATTAT
1 TTATTATTATATTATCATTTATTAT
30146505 TTATTATTATTATTATCA-TTATTAT
1 TTATTATTA-TATTATCATTTATTAT
30146530 TT
1 TT
30146532 CTATACACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTATTATATTATCATTTATTAT
Found at i:30146567 original size:22 final size:21
Alignment explanation
Indices: 30146542--30146588 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
30146532 CTATACACAC
30146542 GCATATGTTTTATAATATATAT
1 GCATAT-TTTTATAATATATAT
30146564 GCAT-TTTTTATAATATATAT
1 GCATATTTTTATAATATATAT
*
30146584 TCATA
1 GCATA
30146589 CACTATACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 18 0.78
21 1 0.04
22 4 0.17
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (21 bp):
GCATATTTTTATAATATATAT
Found at i:30158890 original size:45 final size:45
Alignment explanation
Indices: 30158822--30159276 Score: 622
Period size: 45 Copynumber: 10.1 Consensus size: 45
30158812 GGTTGAAAAC
* * *
30158822 AGCAGATCTTGTCTTCCTGTATTGGTAACAAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
*
30158867 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
** * * * * *
30158912 AATAGTTCTTTTCTTCCTATATTGGCAGTGAAGTAAATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
* *
30158957 AGCAGATCTTGTCTTCCTATATTGGTAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
* * * * *
30159002 AACAGATCTTTTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
30159047 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
* * *
30159092 AACAGATCTTGTCTTCCTATACTAGTAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
*
30159137 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
* * * * * * *
30159182 AACATATCTTGTTTTCCTGTATTGGCAGTGAAGTAGATCAAAGAC
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
* * *
30159227 AGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAGGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
30159272 AGCAG
1 AGCAG
30159277 CCTTATCTCC
Statistics
Matches: 352, Mismatches: 58, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 352 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
Found at i:30161050 original size:3 final size:3
Alignment explanation
Indices: 30161038--30161081 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
30161028 TTTTTGCATC
*
30161038 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30161082 TCTATACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30161505 original size:21 final size:23
Alignment explanation
Indices: 30161480--30161531 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30161470 ATTTGTTATG
* *
30161480 TACATATTAT-ACT-TATATATA
1 TACATATTATAAATATATACATA
*
30161501 TACATATTTTAAATATATACATA
1 TACATATTATAAATATATACATA
30161524 TACATATT
1 TACATATT
30161532 TTCATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (23 bp):
TACATATTATAAATATATACATA
Found at i:30161552 original size:35 final size:34
Alignment explanation
Indices: 30161513--30161602 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 34
30161503 CATATTTTAA
30161513 ATATATACATATACATATTTTCATGATT-TACCAAT
1 ATATATACATATACATATTTTCATGATTGTA--AAT
* **
30161548 ATATATAC-TAATACAT-TTTTTATTTTTGTAAAT
1 ATATATACAT-ATACATATTTTCATGATTGTAAAT
*
30161581 ATATACACATATACATACTTTT
1 ATATATACATATACATA-TTTT
30161603 ATTTTTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
33 16 0.35
34 10 0.22
35 20 0.43
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (34 bp):
ATATATACATATACATATTTTCATGATTGTAAAT
Found at i:30166255 original size:14 final size:15
Alignment explanation
Indices: 30166225--30166259 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30166215 ATGAAACGAA
*
30166225 TTAAAATAAATCAAT
1 TTAAAAAAAATCAAT
30166240 TTAAAAAAAATC-AT
1 TTAAAAAAAATCAAT
30166254 TTAAAA
1 TTAAAA
30166260 TTACATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAAAAATCAAT
Found at i:30173136 original size:24 final size:24
Alignment explanation
Indices: 30173109--30173160 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30173099 TTAGTAAGTC
*
30173109 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30173133 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30173157 AAAT
1 AAAT
30173161 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30175105 original size:24 final size:24
Alignment explanation
Indices: 30175078--30175130 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30175068 ATTAGTAAGT
*
30175078 TAAATAAACTATACTAATAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
30175102 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
30175126 TAAAT
1 TAAAT
30175131 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:30176824 original size:19 final size:22
Alignment explanation
Indices: 30176798--30176851 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 22
30176788 CTAATAATTC
30176798 TATTTTAAAATTAAT-AA-AAT
1 TATTTTAAAATTAATAAATAAT
*
30176818 T-TTTT--AATTCATAAATAAT
1 TATTTTAAAATTAATAAATAAT
30176837 TATTTTAAAATTAAT
1 TATTTTAAAATTAAT
30176852 TTAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 6 0.22
18 2 0.07
19 8 0.30
20 5 0.19
22 6 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTAAAATTAATAAATAAT
Found at i:30192278 original size:99 final size:99
Alignment explanation
Indices: 30192107--30192305 Score: 353
Period size: 99 Copynumber: 2.0 Consensus size: 99
30192097 GGTGCTGCTC
*
30192107 AGTCAAAAACATTCTTTAATGCAACCCCAACCACAAGATATAATAGCAACATCGTCAAAATGACT
1 AGTCAAAAACATTCTTTAACGCAACCCCAACCACAAGATATAATAGCAACATCGTCAAAATGACT
30192172 TTCTGTTTGGAGCAATGATTCTTGTTTAAAGATA
66 TTCTGTTTGGAGCAATGATTCTTGTTTAAAGATA
* * *
30192206 AGTCAAAAACATTTTTTAACGTAGCCCCAACCACAAGATATAATAGCAACATCGTCAAAATGACT
1 AGTCAAAAACATTCTTTAACGCAACCCCAACCACAAGATATAATAGCAACATCGTCAAAATGACT
*
30192271 TTCTGTTTGGAGTAATGATTCTTGTTTAAAGATA
66 TTCTGTTTGGAGCAATGATTCTTGTTTAAAGATA
30192305 A
1 A
30192306 ACCATACATG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (99 bp):
AGTCAAAAACATTCTTTAACGCAACCCCAACCACAAGATATAATAGCAACATCGTCAAAATGACT
TTCTGTTTGGAGCAATGATTCTTGTTTAAAGATA
Found at i:30197098 original size:12 final size:13
Alignment explanation
Indices: 30197074--30197102 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30197064 GGGCTATAAC
30197074 TATTGCATTTATT
1 TATTGCATTTATT
30197087 TATTGC-TTTATT
1 TATTGCATTTATT
30197099 TATT
1 TATT
30197103 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:30200266 original size:15 final size:15
Alignment explanation
Indices: 30200232--30200267 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30200222 CTGGCCGTGT
*
30200232 GTCACACACAGTTGT
1 GTCACACACAGTTGA
*
30200247 TTCACACACAGTTGA
1 GTCACACACAGTTGA
30200262 GTCACA
1 GTCACA
30200268 GTGTAACACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (15 bp):
GTCACACACAGTTGA
Found at i:30200408 original size:33 final size:33
Alignment explanation
Indices: 30200371--30200434 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
30200361 CACTAAACAT
30200371 AGCATAATCAATTCATATTCATGCATGTCGTCC
1 AGCATAATCAATTCATATTCATGCATGTCGTCC
30200404 AGCATAATCAATTCATATTCATGCATGTCGT
1 AGCATAATCAATTCATATTCATGCATGTCGT
30200435 TCCTTATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
AGCATAATCAATTCATATTCATGCATGTCGTCC
Found at i:30204009 original size:41 final size:41
Alignment explanation
Indices: 30203963--30204187 Score: 202
Period size: 41 Copynumber: 5.5 Consensus size: 41
30203953 AGTAGAAACC
* * *
30203963 GGGGCATGTCTGTGCAATTCAAGGGTATCAATGTACAAATA
1 GGGGCATGTATGTGCAATTCAAGGGTACCAAAGTACAAATA
* * * *
30204004 TGGGCATGTATGTGTAATTTAGGGGTACCAAAGTACAAATA
1 GGGGCATGTATGTGCAATTCAAGGGTACCAAAGTACAAATA
* * * * * * *
30204045 GGGGCATGTCTATGAAATT-TAGGGGACCGAAGTACAAAAA
1 GGGGCATGTATGTGCAATTCAAGGGTACCAAAGTACAAATA
* * *
30204085 AGGGCATGTATGTGCAACTCAAGGGTACCAAAGTACAAACA
1 GGGGCATGTATGTGCAATTCAAGGGTACCAAAGTACAAATA
** * * * *
30204126 GGGGCACATATGTGCAATTCATGGGTATCGAAA-TATAAACA
1 GGGGCATGTATGTGCAATTCAAGGGTA-CCAAAGTACAAATA
* *
30204167 GGGGCACGTATATGCAATTCA
1 GGGGCATGTATGTGCAATTCA
30204188 TCATTATTCT
Statistics
Matches: 148, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
40 30 0.20
41 114 0.77
42 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (41 bp):
GGGGCATGTATGTGCAATTCAAGGGTACCAAAGTACAAATA
Found at i:30208096 original size:50 final size:50
Alignment explanation
Indices: 30208014--30208115 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
30208004 TAAAAGTAGA
30208014 ATAACCTTAGTAACAATACAAGTAAATCTGTAGTAGGGTTCTTTTAATGC
1 ATAACCTTAGTAACAATACAAGTAAATCTGTAGTAGGGTTCTTTTAATGC
* * * *
30208064 ATAA-CTTCAGTAGCAATGCAAGTAAGTTTGTAGTAGGGTTCTTTTAATGC
1 ATAACCTT-AGTAACAATACAAGTAAATCTGTAGTAGGGTTCTTTTAATGC
30208114 AT
1 AT
30208116 TTAGAATTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
49 3 0.06
50 44 0.94
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (50 bp):
ATAACCTTAGTAACAATACAAGTAAATCTGTAGTAGGGTTCTTTTAATGC
Found at i:30219325 original size:54 final size:54
Alignment explanation
Indices: 30219257--30219418 Score: 306
Period size: 54 Copynumber: 3.0 Consensus size: 54
30219247 ATTTAAGCTC
* *
30219257 CCATCTTCTATTTGTTTCCTTGCAAGATTTGTTACATGGCTTTAAGAATGGATG
1 CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
30219311 CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
1 CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
30219365 CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
1 CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
30219419 TCGCCCCCTC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (54 bp):
CCATCTTCTATTTGTTTCCTTGCAAGCTTCGTTACATGGCTTTAAGAATGGATG
Found at i:30219882 original size:29 final size:29
Alignment explanation
Indices: 30219840--30219897 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
30219830 ATTCTACTTG
*
30219840 GGAGGGTAAGCCTTAACTTTTAACCCATA
1 GGAGGGTAAGCCTTAAATTTTAACCCATA
30219869 GGAGGGTAAGCCTTAAATTTTAACCCATA
1 GGAGGGTAAGCCTTAAATTTTAACCCATA
30219898 CATTGTTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (29 bp):
GGAGGGTAAGCCTTAAATTTTAACCCATA
Found at i:30221067 original size:16 final size:16
Alignment explanation
Indices: 30221043--30221097 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
30221033 TTAAATTACT
*
30221043 ATTATAGTTCTATTTC
1 ATTACAGTTCTATTTC
30221059 ATTACAGTTCTA-TTC
1 ATTACAGTTCTATTTC
** *
30221074 AATTACAACTCTATTAC
1 -ATTACAGTTCTATTTC
30221091 ATTACAG
1 ATTACAG
30221098 CGAACCAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 3 0.09
16 27 0.84
17 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (16 bp):
ATTACAGTTCTATTTC
Found at i:30223006 original size:21 final size:21
Alignment explanation
Indices: 30222980--30223024 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30222970 TTTTTAGGGG
*
30222980 TGTGTCGTGACATCATCAAGC
1 TGTGTCGCGACATCATCAAGC
* *
30223001 TGTGTCGCGACATCTTCAGGC
1 TGTGTCGCGACATCATCAAGC
30223022 TGT
1 TGT
30223025 CCTAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TGTGTCGCGACATCATCAAGC
Found at i:30237387 original size:21 final size:21
Alignment explanation
Indices: 30237363--30237413 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30237353 CTACAACTTA
* *
30237363 AAGCAGATGCAGCAACGAGGG
1 AAGCAGAGGCAGCAACGAGAG
*
30237384 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
30237405 AAGCTGAGG
1 AAGCAGAGG
30237414 TTCAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:30237447 original size:87 final size:87
Alignment explanation
Indices: 30237301--30237463 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
30237291 AAATTAAAGT
**
30237301 AGAGGCAGCATTGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAG
1 AGAGGCAGCAGCGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAG
30237366 CAGATGCAGCAACGAGGGAAGC
66 CAGATGCAGCAACGAGGGAAGC
* * *
30237388 AGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTTAAAT
1 AGAGGCAGCAGCGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAG
*
30237453 CTGATGCAGCA
66 CAGATGCAGCA
30237464 GTGAGAGAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (87 bp):
AGAGGCAGCAGCGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAG
CAGATGCAGCAACGAGGGAAGC
Found at i:30237490 original size:87 final size:87
Alignment explanation
Indices: 30237303--30237493 Score: 258
Period size: 87 Copynumber: 2.2 Consensus size: 87
30237293 ATTAAAGTAG
**
30237303 AGGCAGCATTGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCA
1 AGGCAGCAACGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCA
* * *
30237368 GATGCAGCAACGAGGGAAGCAG
66 GATGCAGCAACGAGAGAAACAA
* * * * *
30237390 AGGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCCAGCTACAACTTAAATCT
1 AGGCAGCAACGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCA
**
30237455 GATGCAGCAGTGAGAGAAACAA
66 GATGCAGCAACGAGAGAAACAA
30237477 AGGCTA-CAACGAGAGAA
1 AGGC-AGCAACGAGAGAA
30237494 CCAGAGCAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 90 0.99
88 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.13
Consensus pattern (87 bp):
AGGCAGCAACGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCA
GATGCAGCAACGAGAGAAACAA
Found at i:30237981 original size:42 final size:43
Alignment explanation
Indices: 30237812--30238007 Score: 295
Period size: 43 Copynumber: 4.6 Consensus size: 43
30237802 TTTAAAAAAT
* * *
30237812 GCCGCTAAAGGTCATTACCTATAGCGGAGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
* * *
30237855 ACCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGAAAAGT
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
* *
30237898 GCCGCTAAAGGTCATGATCAATAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
30237941 GCCGCTAAAGGTCATGATCT-TAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
* *
30237983 GCTGCTAAAGGTCCTGATCTATAGC
1 GCCGCTAAAGGTCATGATCTATAGC
30238008 AGCGCTTTTA
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 39 0.28
43 98 0.72
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
Found at i:30239189 original size:48 final size:48
Alignment explanation
Indices: 30239087--30239283 Score: 200
Period size: 48 Copynumber: 4.1 Consensus size: 48
30239077 AACAGATTTC
* * * * *
30239087 TCGGTGGCCTGCACACAGTCCGTACCA-CCTT-TACGTAATAGCAGATTT
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTA--TCATAACAGAATA
* * * * * **
30239135 TTGGTGGCCTGTACATAGTCCGTGTCACCCTTGTATCTTAACAGGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
*
30239183 TCGGTGGCCTGCACACAGTCCGTGCCAACCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
* * * * *
30239231 TCGGTGGCCTGCACACATTCCGTGCCACTCTTGTGTCATGACAGAACA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
30239279 TCGGT
1 TCGGT
30239284 ACTCATAGTA
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
48 117 0.95
49 4 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
Found at i:30239253 original size:96 final size:95
Alignment explanation
Indices: 30239087--30239264 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 95
30239077 AACAGATTTC
* * * * * *
30239087 TCGGTGGCCTGCACACAGTCCGTACCACCTTTACGTAATAGCAGATTTTTGGTGGCCTGTACATA
1 TCGGTGGCCTGCACACAGTCCGTACCACCTTTAC-TAATAACAGAATATCGGTGGCCTGCACACA
*
30239152 GTCCGTGTCACCCTTGTATCTTAACAGGTTA
65 GTCCGTGCCACCCTTGTATCTTAACAGGTTA
* *
30239183 TCGGTGGCCTGCACACAGTCCGTGCCAACCTTGTA-TCATAACAGAATATCGGTGGCCTGCACAC
1 TCGGTGGCCTGCACACAGTCCGTACC-ACCTT-TACTAATAACAGAATATCGGTGGCCTGCACAC
* *
30239247 ATTCCGTGCCACTCTTGT
64 AGTCCGTGCCACCCTTGT
30239265 GTCATGACAG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
96 62 0.90
97 5 0.07
98 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (95 bp):
TCGGTGGCCTGCACACAGTCCGTACCACCTTTACTAATAACAGAATATCGGTGGCCTGCACACAG
TCCGTGCCACCCTTGTATCTTAACAGGTTA
Found at i:30242308 original size:42 final size:42
Alignment explanation
Indices: 30242228--30242309 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
30242218 CGTTTTCTCT
* **
30242228 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
30242270 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
30242310 CACACTAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:30245018 original size:48 final size:48
Alignment explanation
Indices: 30244990--30245268 Score: 432
Period size: 48 Copynumber: 5.8 Consensus size: 48
30244980 TAGCAGATTT
* * * *
30244990 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
* * *
30245038 TTGGTGGTCTACACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
*
30245086 TCGGTGGCTTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
*
30245134 TCGGTGGCTTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
*
30245182 TCGGTGGCTTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
** * *
30245230 TCGGTGGCCTGCACACAGTCTATGCCACTCTTGTGTCAT
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
30245269 GACAGAACAT
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 215 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATA
Found at i:30245066 original size:96 final size:96
Alignment explanation
Indices: 30244946--30245268 Score: 441
Period size: 96 Copynumber: 3.4 Consensus size: 96
30244936 GATTTCTCGA
* * * * * ** * * * *
30244946 TGGTCTGCACACAGTCCATACCACCTTTGTGTAATAGCAGATTTTCGGTGGCCTGCACATAGTCC
1 TGGTCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTCC
* * * *
30245011 GTGCCACCCTTGTATCTTAACAGATTATTGG
66 GTGCCACCCTTGTATCATAATAGAATATCGG
*
30245042 TGGTCTACACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTCC
1 TGGTCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTCC
30245107 GTGCCACCCTTGTATCATAATAGAATATCGG
66 GTGCCACCCTTGTATCATAATAGAATATCGG
30245138 TGG-CTTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTC
1 TGGTC-TGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTC
30245202 CGTGCCACCCTTGTATCATAATAGAATATCGG
65 CGTGCCACCCTTGTATCATAATAGAATATCGG
* ** * *
30245234 TGGCCTGCACACAGTCTATGCCACTCTTGTGTCAT
1 TGGTCTGCACACAGTCCGTGCCACCCTTGTATCAT
30245269 GACAGAACAT
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.00
96 202 0.99
97 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (96 bp):
TGGTCTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTCC
GTGCCACCCTTGTATCATAATAGAATATCGG
Found at i:30245211 original size:144 final size:144
Alignment explanation
Indices: 30244950--30245268 Score: 442
Period size: 144 Copynumber: 2.2 Consensus size: 144
30244940 TCTCGATGGT
* * * * ** * * *
30244950 CTGCACACAGTCCATACCACCTTTGTGTAATAGCAGATTTTCGGTGGCCTGCACATAGTCCGTGC
1 CTGCACACAGTCCATGCCACCCTTGTATCATAATAGAATATCGGTGGCCTGCACACAGTCCGTGC
* * *
30245015 CACCCTTGTATCTTAACAGATTATTGGTGGTCTACACACAGTCCGTGCCACCCTTGTATCATAAT
66 CACCCTTGTATCATAACAGAATATCGGTGGTCTACACACAGTCCGTGCCACCCTTGTATCATAAT
30245080 AGAATATCGGTGGC
131 AGAATATCGGTGGC
* * *
30245094 TTGCACACAGTCCGTGCCACCCTTGTATCATAATAGAATATCGGTGGCTTGCACACAGTCCGTGC
1 CTGCACACAGTCCATGCCACCCTTGTATCATAATAGAATATCGGTGGCCTGCACACAGTCCGTGC
* *
30245159 CACCCTTGTATCATAATAGAATATCGGTGG-CTTGCACACAGTCCGTGCCACCCTTGTATCATAA
66 CACCCTTGTATCATAACAGAATATCGGTGGTC-TACACACAGTCCGTGCCACCCTTGTATCATAA
30245223 TAGAATATCGGTGGC
130 TAGAATATCGGTGGC
* * *
30245238 CTGCACACAGTCTATGCCACTCTTGTGTCAT
1 CTGCACACAGTCCATGCCACCCTTGTATCAT
30245269 GACAGAACAT
Statistics
Matches: 152, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
143 1 0.01
144 151 0.99
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (144 bp):
CTGCACACAGTCCATGCCACCCTTGTATCATAATAGAATATCGGTGGCCTGCACACAGTCCGTGC
CACCCTTGTATCATAACAGAATATCGGTGGTCTACACACAGTCCGTGCCACCCTTGTATCATAAT
AGAATATCGGTGGC
Found at i:30247937 original size:15 final size:17
Alignment explanation
Indices: 30247919--30247951 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30247909 TACAAAATTA
30247919 ATTAA-AATTTAA-TAT
1 ATTAATAATTTAAGTAT
30247934 ATTAATAATTTAAGTAT
1 ATTAATAATTTAAGTAT
30247951 A
1 A
30247952 ATTCAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTAATAATTTAAGTAT
Found at i:30255882 original size:17 final size:18
Alignment explanation
Indices: 30255857--30255893 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30255847 TATAAAATAT
*
30255857 AATATAAAGAA-AATAAA
1 AATAAAAAGAAGAATAAA
30255874 AATAAAAAGAAGAATAAA
1 AATAAAAAGAAGAATAAA
30255892 AA
1 AA
30255894 AAGTGCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AATAAAAAGAAGAATAAA
Found at i:30256591 original size:41 final size:42
Alignment explanation
Indices: 30256503--30256591 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
30256493 TTGTCCTCAC
* *
30256503 CCGTGTAACTTACTGAGTAGCCTCATATGCCCGTGTGCCAGG
1 CCGTGTAACTCACTGAGTAGCCTCACATGCCCGTGTGCCAGG
* *
30256545 CCGTGTAACTCACTGAGTAGCAC-CACATG-TCGTGTGCTAGG
1 CCGTGTAACTCACTGAGTAGC-CTCACATGCCCGTGTGCCAGG
30256586 CCGTGT
1 CCGTGT
30256592 GCTAGGCTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 16 0.38
42 25 0.60
43 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (42 bp):
CCGTGTAACTCACTGAGTAGCCTCACATGCCCGTGTGCCAGG
Found at i:30257960 original size:17 final size:16
Alignment explanation
Indices: 30257925--30257961 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
30257915 TGTGCCGAAT
30257925 TTCTTTTCTTTTCTTC
1 TTCTTTTCTTTTCTTC
*
30257941 TTCTTTTCTATTTTTTC
1 TTCTTTTCT-TTTCTTC
30257958 TTCT
1 TTCT
30257962 CTTGTTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTCTTTTCTTC
Found at i:30258925 original size:27 final size:27
Alignment explanation
Indices: 30258887--30259215 Score: 366
Period size: 27 Copynumber: 12.3 Consensus size: 27
30258877 TGCGTATCGT
*
30258887 GGGTAAAATTATCGAAATACCTTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
*
30258914 GGGTAAAATTAT-AAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
*
30258940 GGGTAAAATTAT-AAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
*
30258966 GGGTAAAATTATTGAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* * * * *
30258993 AGGTAAAATTATTGAATTAACCTCAAA
1 GGGTAAAATTATCGAAATACCCTCGAA
*
30259020 GGGTAAAATAATCGAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* *
30259047 GTGTAAAATTA-CTGAAATACCC-CTAA
1 GGGTAAAATTATC-GAAATACCCTCGAA
** * * * *
30259073 AAGTTAAATTATCAAAATATCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* *
30259100 GGGTAAAATTA-CATAAATACCC-CAAA
1 GGGTAAAATTATC-GAAATACCCTCGAA
* *
30259126 GGGTAAAATTATCGAAATACCCTTGAT
1 GGGTAAAATTATCGAAATACCCTCGAA
30259153 GGGTAAAATTATCGAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACCCTCGAA
* *
30259180 GGGTAAAATTA-CTAAAATACCCCCGAA
1 GGGTAAAATTATC-GAAATACCCTCGAA
30259207 GGGTAAAAT
1 GGGTAAAAT
30259216 GACCGTTATA
Statistics
Matches: 259, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 94 0.36
27 165 0.64
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCGAA
Found at i:30258950 original size:53 final size:53
Alignment explanation
Indices: 30258887--30259215 Score: 344
Period size: 53 Copynumber: 6.2 Consensus size: 53
30258877 TGCGTATCGT
30258887 GGGTAAAATTATCGAAATACCTTCGAAGGGTAAAATTAT-AAAATACCCTCGAA
1 GGGTAAAATTATCGAAATACC-TCGAAGGGTAAAATTATCAAAATACCCTCGAA
* **
30258940 GGGTAAAATTAT-AAAATACCCTCGAAGGGTAAAATTATTGAAATACCCTCGAA
1 GGGTAAAATTATCGAAATA-CCTCGAAGGGTAAAATTATCAAAATACCCTCGAA
* * * * * *
30258993 AGGTAAAATTATTGAATTAACCTCAAAGGGTAAAATAATCGAAATACCCTCGAA
1 GGGTAAAATTATCGAAAT-ACCTCGAAGGGTAAAATTATCAAAATACCCTCGAA
* * * ** * * *
30259047 GTGTAAAATTA-CTGAAATACCCCTAAAAGTTAAATTATCAAAATATCCTCAAA
1 GGGTAAAATTATC-GAAATACCTCGAAGGGTAAAATTATCAAAATACCCTCGAA
* * * * * *
30259100 GGGTAAAATTA-CATAAATACCCCAAAGGGTAAAATTATCGAAATACCCTTGAT
1 GGGTAAAATTATC-GAAATACCTCGAAGGGTAAAATTATCAAAATACCCTCGAA
*
30259153 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CTAAAATACCCCCGAA
1 GGGTAAAATTATCGAAATA-CCTCGAAGGGTAAAATTATC-AAAATACCCTCGAA
30259207 GGGTAAAAT
1 GGGTAAAAT
30259216 GACCGTTATA
Statistics
Matches: 228, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
52 22 0.10
53 122 0.54
54 83 0.36
55 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (53 bp):
GGGTAAAATTATCGAAATACCTCGAAGGGTAAAATTATCAAAATACCCTCGAA
Found at i:30259229 original size:160 final size:159
Alignment explanation
Indices: 30258919--30259231 Score: 405
Period size: 160 Copynumber: 2.0 Consensus size: 159
30258909 TCGAAGGGTA
* * * *
30258919 AAATTATAAAATACCCTCGAAGGGTAAAATTATAAAATACCCTCGAAGGGTAAAATTATTGAAAT
1 AAATTATAAAATACCCTCAAAGGGTAAAATTACAAAATACCCTCAAAGGGTAAAATTATCGAAAT
* * * * *
30258984 ACCCTCGAAAGGTAAAATTATTGAATTAACCTCAAAGGGTAAAATAATCGAAATACCCTCGAAGT
66 ACCCTCGAAAGGTAAAATTATCGAAATAACCTCAAAGGGTAAAATAATCAAAATACCCCCGAAGG
* *
30259049 GTAAAATTACTGAAATACCCCTAAAAGTT
131 GTAAAATGACCGAAATACCCCTAAAAGTT
*
30259078 AAATTATCAAAATATCCTCAAAGGGTAAAATTACATAAATACCC-CAAAGGGTAAAATTATCGAA
1 AAATTAT-AAAATACCCTCAAAGGGTAAAATTACA-AAATACCCTCAAAGGGTAAAATTATCGAA
* ** * * *
30259142 ATACCCTTGATGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CTAAAATACCCCCGA
64 ATACCCTCGAAAGGTAAAATTATCGAAATAACCTCAAAGGGTAAAATAATC-AAAATACCCCCGA
**
30259206 AGGGTAAAATGACCGTTATACCCCTA
128 AGGGTAAAATGACCGAAATACCCCTA
30259232 GGAGTTGAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
159 8 0.06
160 115 0.88
161 8 0.06
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (159 bp):
AAATTATAAAATACCCTCAAAGGGTAAAATTACAAAATACCCTCAAAGGGTAAAATTATCGAAAT
ACCCTCGAAAGGTAAAATTATCGAAATAACCTCAAAGGGTAAAATAATCAAAATACCCCCGAAGG
GTAAAATGACCGAAATACCCCTAAAAGTT
Found at i:30260321 original size:40 final size:40
Alignment explanation
Indices: 30260269--30260648 Score: 474
Period size: 40 Copynumber: 9.5 Consensus size: 40
30260259 AGTATAAATA
* **
30260269 GGGCATGTATGTG-AGTTCAGGGGTGTCGAAGTACAAACAG
1 GGGCACGTATGTGCA-TTCAGGGGTACCGAAGTACAAACAG
* *
30260309 GGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAATAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * *
30260349 GGGCACATATGTGCATTCAGTGGTACCGAAGTACAAATAA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * * *
30260389 TGTCACGTATGTGTATTCAAGGGTACTGAAGTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * *
30260429 GGGTACGTATGTGCATTCAGGGGTATCGAATTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * *
30260469 GGGCACGTATGTACATTCAGAGGTACTGAAGTACAAATAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* ** *
30260509 GGGCACATATGTGCATTCAGGGGTACTAAAGTACAAACAA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
*
30260549 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* *
30260589 GGGCACGTATGTGTATTCAGGGGTACCGAAGTACAAACAT
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* *
30260629 GGGCATGTTTGTGCATTCAG
1 GGGCACGTATGTGCATTCAG
30260649 CAATAATTAT
Statistics
Matches: 289, Mismatches: 50, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
40 288 1.00
41 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (40 bp):
GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
Found at i:30260434 original size:20 final size:20
Alignment explanation
Indices: 30260409--30260547 Score: 61
Period size: 20 Copynumber: 7.0 Consensus size: 20
30260399 GTGTATTCAA
30260409 GGGTACTGAAGTACAAACAG
1 GGGTACTGAAGTACAAACAG
* * **
30260429 GGGTAC-GTATGTGCATTCAG
1 GGGTACTG-AAGTACAAACAG
*
30260449 GGGTA-TCGAATTACAAACAG
1 GGGTACT-GAAGTACAAACAG
* * **
30260469 GGGCAC-GTATGTACATTCAG
1 GGGTACTG-AAGTACAAACAG
* *
30260489 AGGTACTGAAGTACAAATAG
1 GGGTACTGAAGTACAAACAG
* * * **
30260509 GGGCACAT-ATGTGCATTCAG
1 GGGTAC-TGAAGTACAAACAG
*
30260529 GGGTACTAAAGTACAAACA
1 GGGTACTGAAGTACAAACA
30260548 AGGGCACGTA
Statistics
Matches: 79, Mismatches: 32, Indels: 16
0.62 0.25 0.13
Matches are distributed among these distances:
19 3 0.04
20 73 0.92
21 3 0.04
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (20 bp):
GGGTACTGAAGTACAAACAG
Found at i:30261803 original size:32 final size:32
Alignment explanation
Indices: 30261753--30261920 Score: 176
Period size: 32 Copynumber: 5.3 Consensus size: 32
30261743 GAATGACTAC
* * *
30261753 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
30261784 AAGCCACCAGTAGTAGTAATATGATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
30261816 CAGCGATCAGTAATAGTAGTATGATCAGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
30261848 AAGCCATCAGTAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * * *
30261880 CAGCCATCGGTAATGGTAATATGATCGGTAAA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
30261912 AAGCCATCA
1 AAGCCATCA
30261921 ATAGCATCAC
Statistics
Matches: 108, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
31 9 0.08
32 99 0.92
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:30261872 original size:64 final size:64
Alignment explanation
Indices: 30261766--30261920 Score: 202
Period size: 64 Copynumber: 2.4 Consensus size: 64
30261756 CCATAAGTAC
** * *
30261766 AGTAATATGATTGGCACAAAGCCACCAGTAGTAGTAATATGATCGACACACAGCGATCAGTAAT
1 AGTAATATGATCAGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
* * * *
30261830 AGTAGTATGATCAGCACAAAGCCATCAGTAGTAGTAATATGATTGGCACACAGCCATCGGTAAT
1 AGTAATATGATCAGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
* * * *
30261894 GGTAATATGATCGGTAAAAAGCCATCA
1 AGTAATATGATCAGCACAAAGCCATCA
30261921 ATAGCATCAC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (64 bp):
AGTAATATGATCAGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
Found at i:30261976 original size:27 final size:27
Alignment explanation
Indices: 30261941--30262000 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
30261931 TGCAAAACTG
*
30261941 CCAGTAACAGT-ATATGTGGCCA-AGCCA
1 CCAGAAACAGTGAT-TGTGG-CAGAGCCA
30261968 CCAGAAACAGTGATTGTGGCAGAGCCA
1 CCAGAAACAGTGATTGTGGCAGAGCCA
30261995 CCAGAA
1 CCAGAA
30262001 CACTACTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (27 bp):
CCAGAAACAGTGATTGTGGCAGAGCCA
Found at i:30262097 original size:24 final size:24
Alignment explanation
Indices: 30262069--30262202 Score: 105
Period size: 24 Copynumber: 5.6 Consensus size: 24
30262059 CCATGCACAG
**
30262069 AATCAGACATACAAATTACAGACA
1 AATCAGACATTTAAATTACAGACA
*
30262093 AATCA-ACCATTTAAATTACAGGCA
1 AATCAGA-CATTTAAATTACAGACA
* * *
30262117 AATCAGTCATTTAAATCATAGACA
1 AATCAGACATTTAAATTACAGACA
* * *
30262141 AATCAGTCATTTACATCT-CGGACA
1 AATCAGACATTTAAAT-TACAGACA
* *
30262165 AATCA-ATCATTTACATCACAGACA
1 AATCAGA-CATTTAAATTACAGACA
30262189 AATCA-ATCATTTAA
1 AATCAGA-CATTTAA
30262203 CCCCGAGGGG
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.01
24 89 0.99
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (24 bp):
AATCAGACATTTAAATTACAGACA
Found at i:30262143 original size:48 final size:48
Alignment explanation
Indices: 30262081--30262202 Score: 149
Period size: 48 Copynumber: 2.5 Consensus size: 48
30262071 TCAGACATAC
* * *
30262081 AAATTACAGACAAATCAACCATTTAAAT-TACAGG-CAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTTAAATCT-C-GGACAAATCAATCATTT
* * *
30262129 AAATCATAGACAAATCAGTCATTTACATCTCGGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTTAAATCTCGGACAAATCAATCATTT
*
30262177 ACATCACAGACAAATCAATCATTTAA
1 AAATCACAGACAAATCAATCATTTAA
30262203 CCCCGAGGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 2 0.03
48 59 0.95
49 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (48 bp):
AAATCACAGACAAATCAATCATTTAAATCTCGGACAAATCAATCATTT
Found at i:30265537 original size:17 final size:16
Alignment explanation
Indices: 30265515--30265554 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
30265505 ATCAGTAAGG
30265515 AAAATAATAAAATAACA
1 AAAATAATAAAA-AACA
* *
30265532 AAAATAATGAGAAACA
1 AAAATAATAAAAAACA
30265548 AAAATAA
1 AAAATAA
30265555 AGGGAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAATAATAAAAAACA
Found at i:30265561 original size:16 final size:16
Alignment explanation
Indices: 30265528--30265561 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30265518 ATAATAAAAT
*
30265528 AACAAAAATAATGAGA
1 AACAAAAATAAAGAGA
*
30265544 AACAAAAATAAAGGGA
1 AACAAAAATAAAGAGA
30265560 AA
1 AA
30265562 TTAATAAAAT
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:0.71, C:0.06, G:0.15, T:0.09
Consensus pattern (16 bp):
AACAAAAATAAAGAGA
Found at i:30269194 original size:50 final size:50
Alignment explanation
Indices: 30269129--30269279 Score: 131
Period size: 50 Copynumber: 3.0 Consensus size: 50
30269119 TCATCCATCC
* * *
30269129 ATAACACCATTTGTGGACAAGCCACTATTGATTTGCAGATAAACTATCACTG
1 ATAACA-C-TTTGTGGACAAGCCACCATTGATATGCAGATAAACTACCACTG
* * * ** *
30269181 ATAACACTTTGTGGACAAACCTCCATTGATATGCAGTTATGCTGCCACTG
1 ATAACACTTTGTGGACAAGCCACCATTGATATGCAGATAAACTACCACTG
* * * * * * * *
30269231 ATAACATTTTATGGACAAGCTACGATAGATATGTAGATATACTGCCACT
1 ATAACACTTTGTGGACAAGCCACCATTGATATGCAGATAAACTACCACT
30269280 TACTTCCACT
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 73 0.91
51 1 0.01
52 6 0.08
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (50 bp):
ATAACACTTTGTGGACAAGCCACCATTGATATGCAGATAAACTACCACTG
Found at i:30276368 original size:17 final size:17
Alignment explanation
Indices: 30276346--30276398 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
30276336 ATTAAAAAAT
30276346 CATATCTTCAAAGATTA
1 CATATCTTCAAAGATTA
*
30276363 CATATCATATCAAAGATTG
1 CATATC-T-TCAAAGATTA
* *
30276382 CATATCCTCGAAGATTA
1 CATATCTTCAAAGATTA
30276399 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (17 bp):
CATATCTTCAAAGATTA
Found at i:30285343 original size:23 final size:23
Alignment explanation
Indices: 30285309--30285355 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
30285299 ATTTTCATAA
30285309 TCTAAAGGTTTCAAAGTATATAG
1 TCTAAAGGTTTCAAAGTATATAG
* *
30285332 TCTAAAGTTTTCAAAGTCTATAG
1 TCTAAAGGTTTCAAAGTATATAG
30285355 T
1 T
30285356 TTTCACAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (23 bp):
TCTAAAGGTTTCAAAGTATATAG
Found at i:30285351 original size:16 final size:16
Alignment explanation
Indices: 30285330--30285385 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
30285320 CAAAGTATAT
30285330 AGTCTAAAGTTTTCAA
1 AGTCTAAAGTTTTCAA
* *
30285346 AGTCTATAGTTTTCAC
1 AGTCTAAAGTTTTCAA
30285362 AGTCTAAAGTTTTCAA
1 AGTCTAAAGTTTTCAA
30285378 A-TCTAAAG
1 AGTCTAAAG
30285386 AACACTTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 7 0.19
16 29 0.81
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (16 bp):
AGTCTAAAGTTTTCAA
Found at i:30287677 original size:22 final size:22
Alignment explanation
Indices: 30287647--30287702 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
30287637 CTGTGGTGTA
30287647 GTGGAAAGGTGGCGACACAGGT
1 GTGGAAAGGTGGCGACACAGGT
*
30287669 GTGGCAAGGAGGTGGCGTCACAGGT
1 GTGG-AA--AGGTGGCGACACAGGT
*
30287694 GTGGTAAGG
1 GTGGAAAGG
30287703 AGGTCAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 1 0.03
25 19 0.66
ACGTcount: A:0.23, C:0.12, G:0.48, T:0.16
Consensus pattern (22 bp):
GTGGAAAGGTGGCGACACAGGT
Found at i:30287681 original size:25 final size:25
Alignment explanation
Indices: 30287653--30287706 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
30287643 TGTAGTGGAA
30287653 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* *
30287678 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
30287703 AGGT
1 AGGT
30287707 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:30289141 original size:26 final size:27
Alignment explanation
Indices: 30289113--30289231 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
30289103 AAAGGTTTTT
* ** *
30289113 AAATGACCGAATTACCTTTGGAGGGTA
1 AAATGATCGAATTACCCGTGAAGGGTA
*
30289140 AAATGATTGAATTACCCGTGAAGGGTA
1 AAATGATCGAATTACCCGTGAAGGGTA
* *
30289167 AAATGATCAAATTACCCCTGAAGGGTA
1 AAATGATCGAATTACCCGTGAAGGGTA
* *
30289194 AAATGATTGAAATACCC-TCGAAGGGTA
1 AAATGATCGAATTACCCGT-GAAGGGTA
*
30289221 AAATTATCGAA
1 AAATGATCGAA
30289232 ATAGCCTCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATGATCGAATTACCCGTGAAGGGTA
Found at i:30289151 original size:27 final size:27
Alignment explanation
Indices: 30289121--30289224 Score: 136
Period size: 27 Copynumber: 3.9 Consensus size: 27
30289111 TTAAATGACC
* *
30289121 GAATTACCTTTGGAGGGTAAAATGATT
1 GAATTACCCTTGAAGGGTAAAATGATT
* *
30289148 GAATTACCCGTGAAGGGTAAAATGATC
1 GAATTACCCTTGAAGGGTAAAATGATT
* *
30289175 AAATTACCCCTGAAGGGTAAAATGATT
1 GAATTACCCTTGAAGGGTAAAATGATT
* *
30289202 GAAATACCCTCGAAGGGTAAAAT
1 GAATTACCCTTGAAGGGTAAAAT
30289225 TATCGAAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (27 bp):
GAATTACCCTTGAAGGGTAAAATGATT
Found at i:30289232 original size:27 final size:27
Alignment explanation
Indices: 30289134--30289251 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
30289124 TTACCTTTGG
* *
30289134 AGGGTAAAATGATTGAATTACCCGT-GA
1 AGGGTAAAATGATCGAAATACCC-TCGA
30289161 AGGGTAAAATGATC-AAATTACCC-CTGA
1 AGGGTAAAATGATCGAAA-TACCCTC-GA
*
30289188 AGGGTAAAATGATTGAAATACCCTCGA
1 AGGGTAAAATGATCGAAATACCCTCGA
* * *
30289215 AGGGTAAAATTATCGAAATAGCCTCAA
1 AGGGTAAAATGATCGAAATACCCTCGA
*
30289242 ATGGTAAAAT
1 AGGGTAAAAT
30289252 AACCAAAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 72 0.92
28 4 0.05
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCTCGA
Found at i:30289260 original size:27 final size:27
Alignment explanation
Indices: 30289203--30289266 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
30289193 AAAATGATTG
* * * *
30289203 AAATACCCTCGAAGGGTAAAATTATCG
1 AAATACCCTCAAAGGGTAAAATAACCA
* *
30289230 AAATAGCCTCAAATGGTAAAATAACCA
1 AAATACCCTCAAAGGGTAAAATAACCA
30289257 AAATAACCCT
1 AAAT-ACCCT
30289267 ATAGGATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (27 bp):
AAATACCCTCAAAGGGTAAAATAACCA
Found at i:30328604 original size:18 final size:19
Alignment explanation
Indices: 30328581--30328616 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30328571 CTATAGAATA
30328581 AAATTG-CATATAAAAAAT
1 AAATTGTCATATAAAAAAT
30328599 AAATTGTCATATAAAAAA
1 AAATTGTCATATAAAAAA
30328617 AAGGGTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATTGTCATATAAAAAAT
Found at i:30328637 original size:3 final size:3
Alignment explanation
Indices: 30328631--30328677 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
30328621 GTACTTACGC
* * *
30328631 TAA TAA TAA TAG TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30328678 TATTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30328652 original size:12 final size:12
Alignment explanation
Indices: 30328631--30328677 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
30328621 GTACTTACGC
30328631 TAATAATAATAG
1 TAATAATAATAG
*
30328643 TAATAGTAATAG
1 TAATAATAATAG
*
30328655 TAATAATAATAA
1 TAATAATAATAG
30328667 TAATAATAATA
1 TAATAATAATA
30328678 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:30330380 original size:45 final size:45
Alignment explanation
Indices: 30330318--30330912 Score: 776
Period size: 45 Copynumber: 13.1 Consensus size: 45
30330308 TGCTATCCTT
* *
30330318 GATCTACTTCGCTACCAATACAGGAAGACATGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * * * * *
30330363 GATCTACTTCACTACCAATACAAGAAAACAAGATTTGCTATCTTT
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * *
30330408 GATCTACTTCGTTGCCCATACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * * * *
30330453 GATCTACTTTGCTACTAATATAGGAAGACAAGATCTGTTGTCTTT
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* *
30330498 GATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
*
30330543 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* *
30330588 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * *
30330633 GATATACTTCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* *
30330678 GATCTACTTCGCTACCAATATAGGAAGGGAAGACAAGATATGTTATCTTC
1 GATCTACTTCGCTACC-A-ATA--CA-GGAAGACAAGATCTGTTATCTTC
* ** *
30330728 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTT
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * *
30330773 GATCTACTTTGCTGCCAATACAGGAAGACAAGATCCGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * ** *
30330818 GATCTACTTCGCTACCAATATAGGAAAACAAGATCTACTATCTTT
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
* * *
30330863 GATCTACTTTGCTGCCAAGACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
30330908 GATCT
1 GATCT
30330913 GTTCTCTGGG
Statistics
Matches: 473, Mismatches: 72, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
45 425 0.90
46 2 0.00
47 3 0.01
48 3 0.01
49 2 0.00
50 38 0.08
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
GATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
Found at i:30331742 original size:13 final size:13
Alignment explanation
Indices: 30331724--30331749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30331714 ATTATCAAAG
30331724 ATAATAAAGAAAT
1 ATAATAAAGAAAT
30331737 ATAATAAAGAAAT
1 ATAATAAAGAAAT
30331750 TAGTTAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
ATAATAAAGAAAT
Found at i:30332038 original size:42 final size:42
Alignment explanation
Indices: 30331972--30332052 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
30331962 AGTATAGCAA
*
30331972 GACCACTGCATGCCCCATTTTGATCAATATTTGAACTGCCCT
1 GACCACTGCATGCCCCATTCTGATCAATATTTGAACTGCCCT
* *
30332014 GACCATCT-CATGCCCTATTCTGATCAATATTTGAGCTGC
1 GACCA-CTGCATGCCCCATTCTGATCAATATTTGAACTGC
30332053 TCTTTTTGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (42 bp):
GACCACTGCATGCCCCATTCTGATCAATATTTGAACTGCCCT
Found at i:30343529 original size:17 final size:18
Alignment explanation
Indices: 30343509--30343545 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30343499 CCTATAGTAT
30343509 AAAATT-ACATATAAAAA
1 AAAATTGACATATAAAAA
*
30343526 AAAATTGTCATATAAAAA
1 AAAATTGACATATAAAAA
30343544 AA
1 AA
30343546 GGGTACTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATTGACATATAAAAA
Found at i:30344135 original size:8 final size:8
Alignment explanation
Indices: 30344122--30344179 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
30344112 TATTTAAAGC
30344122 AAAATAAA
1 AAAATAAA
30344130 AAAATAAA
1 AAAATAAA
***
30344138 AACGGAAA
1 AAAATAAA
30344146 AAAATAAA
1 AAAATAAA
*
30344154 AATATATATA
1 AA-A-ATAAA
30344164 AAAAT-AA
1 AAAATAAA
30344171 AAAATAAA
1 AAAATAAA
30344179 A
1 A
30344180 GAACGATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
7 6 0.15
8 25 0.64
9 2 0.05
10 6 0.15
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:30345696 original size:14 final size:15
Alignment explanation
Indices: 30345666--30345705 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
30345656 AGAGCTCGGA
30345666 AAAAC-ATAGCTTAT
1 AAAACTATAGCTTAT
*
30345680 AAAACTATA-CTTTT
1 AAAACTATAGCTTAT
30345694 AAAA-TATAGCTT
1 AAAACTATAGCTT
30345706 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (15 bp):
AAAACTATAGCTTAT
Found at i:30348565 original size:3 final size:3
Alignment explanation
Indices: 30348557--30348631 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
30348547 AAATATATAT
* * * *
30348557 TTA TTA TTA TTA TT- TTA TTA TTA TTA CTA TTA CTA TTA CTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
30348604 TTA TTA TTA TTA TAA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30348632 AAAGCAAGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:30354429 original size:40 final size:40
Alignment explanation
Indices: 30354370--30354455 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
30354360 TATCGAAGTA
* * * *
30354370 CAAACAGGGGTACCGAAGTA-AAAATAGTGGCACGTGTGTG
1 CAAACAGGAGTACCAAAGTACAAAAT-GGGGCACGTATGTG
*
30354410 CAAACAGGAGTACCAAAGTACAAACTGGGGCACGTATGTG
1 CAAACAGGAGTACCAAAGTACAAAATGGGGCACGTATGTG
30354450 CAAACA
1 CAAACA
30354456 TTCAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (40 bp):
CAAACAGGAGTACCAAAGTACAAAATGGGGCACGTATGTG
Found at i:30370832 original size:63 final size:63
Alignment explanation
Indices: 30370757--30370877 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
30370747 TTATATGGTA
* * *
30370757 ATTAGCCTATTAATGTTGATAATGGATTATAAGTTTTTGGCAAGAGTGAAATTTGAATGAATT
1 ATTAGCCCATTAATGTTGATAATGGATTATAAGTGTTTGGAAAGAGTGAAATTTGAATGAATT
* *
30370820 ATTAGCCCATTAATGTTGATAATGGATTATAAGTGTTTGGAAATAGTGATATTTGAAT
1 ATTAGCCCATTAATGTTGATAATGGATTATAAGTGTTTGGAAAGAGTGAAATTTGAAT
30370878 TCTTATGTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (63 bp):
ATTAGCCCATTAATGTTGATAATGGATTATAAGTGTTTGGAAAGAGTGAAATTTGAATGAATT
Found at i:30379304 original size:25 final size:25
Alignment explanation
Indices: 30379238--30379315 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
30379228 GTAATTAGGG
* *
30379238 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
*
30379262 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * *
30379287 TTACC-ATTATTCAGCTCGAAGGAGC
1 TTACCGA-TACTCAGCTCGTATGAGC
30379312 TTAC
1 TTAC
30379316 TGTTTATCAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
24 10 0.22
25 35 0.78
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:30379335 original size:24 final size:24
Alignment explanation
Indices: 30379255--30379335 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
30379245 TTCCAGCTCT
*
30379255 TATGAGCTTACCGA-TACTCAACTCG
1 TATGAGCTTACC-ATTATTC-ACTCG
30379280 TATGAGCTTACCATTATTCAGCTCG
1 TATGAGCTTACCATTATTCA-CTCG
* * **
30379305 AAGGAGCTTACTGTT-TATCACTCG
1 TATGAGCTTACCATTAT-TCACTCG
30379329 TATGAGC
1 TATGAGC
30379336 ATGCATGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
24 12 0.26
25 34 0.74
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (24 bp):
TATGAGCTTACCATTATTCACTCG
Done.