Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 154 of 349
Found at i:49663217 original size:27 final size:27
Alignment explanation
Indices: 49663186--49663363 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49663176 TAAATTGTAC
49663186 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49663213 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49663239 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49663267 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49663295 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49663322 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49663349 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49663364 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49663300 original size:82 final size:81
Alignment explanation
Indices: 49663187--49663342 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49663177 AAATTGTACA
* *
49663187 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49663251 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49663268 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49663333 TGCGAGTTGA
65 TGCGAATTGA
49663343 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49663354 original size:82 final size:81
Alignment explanation
Indices: 49663183--49663363 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49663173 GATTAAATTG
* *
49663183 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49663248 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49663264 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49663328 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49663346 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49663364 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49680324 original size:145 final size:145
Alignment explanation
Indices: 49680126--49680399 Score: 485
Period size: 145 Copynumber: 1.9 Consensus size: 145
49680116 AACTCAAGGT
* * *
49680126 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
**
49680191 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAATGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATGC
49680256 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
49680271 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
49680336 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATG
49680400 TACTTTAAAC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 122 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATGC
ATTTCAAGTTCGCAC
Found at i:49680445 original size:29 final size:29
Alignment explanation
Indices: 49680382--49680449 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
49680372 TAATCAACCA
*
49680382 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
49680411 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49680440 CGCACACTTA
1 CGCACACTTA
49680450 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49680529 original size:174 final size:174
Alignment explanation
Indices: 49680239--49680598 Score: 693
Period size: 174 Copynumber: 2.1 Consensus size: 174
49680229 ATCAACTGCG
*
49680239 CACACTTAATGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
*
49680304 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCACACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
49680369 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
*
49680413 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
49680478 TAAGGTCACACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCACACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
49680543 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
49680587 CACACTTAGTGC
1 CACACTTAGTGC
49680599 TGTACAATTT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
TAAGGTCACACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:49680592 original size:29 final size:30
Alignment explanation
Indices: 49680558--49680629 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
49680548 ATCAACCACG
*
49680558 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
49680587 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
49680616 CACACTTAGTGCCA
1 CACACTTAGTGCCA
49680630 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:49686688 original size:40 final size:40
Alignment explanation
Indices: 49686652--49686921 Score: 402
Period size: 40 Copynumber: 6.8 Consensus size: 40
49686642 GGATATAGCT
*
49686652 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
* *
49686691 AGTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
* *
49686732 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
49686772 ACTCACACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
49686812 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
* *
49686852 ACTAGCACAAATGCCTTCAGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
49686892 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
49686922 CGTTATCATC
Statistics
Matches: 217, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 213 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
Found at i:49690598 original size:31 final size:30
Alignment explanation
Indices: 49690533--49690599 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
49690523 AAGGACATGG
* *
49690533 ACGTGTGTGACCAACGGCCAACCTACACGG
1 ACGTGTGTGACCAACGGCCAACCCACACGA
*
49690563 ACGTGTGTGACCACACGGCCAACCCGCACGA
1 ACGTGTGTGACCA-ACGGCCAACCCACACGA
49690594 ACGTGT
1 ACGTGT
49690600 CCCAAGCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.25, C:0.34, G:0.27, T:0.13
Consensus pattern (30 bp):
ACGTGTGTGACCAACGGCCAACCCACACGA
Found at i:49694148 original size:12 final size:12
Alignment explanation
Indices: 49694131--49694158 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49694121 AGATGGACAA
49694131 AATTTGGCTTTT
1 AATTTGGCTTTT
49694143 AATTTGGCTTTT
1 AATTTGGCTTTT
49694155 AATT
1 AATT
49694159 CATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (12 bp):
AATTTGGCTTTT
Found at i:49707872 original size:127 final size:126
Alignment explanation
Indices: 49707646--49707898 Score: 391
Period size: 127 Copynumber: 2.0 Consensus size: 126
49707636 ACTCAACATT
* ** * *
49707646 GTAGACAAGATGGCTAAAGGCCATAAATATCGTAGCAATGCTGCCAGTTAACAGAACGGCTATAA
1 GTAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAA
* *
49707711 GCCATTAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACACTTTC
66 GCCATAAGTATCGCAGAAAGCCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACA-TTTC
* * *
49707773 GTAGACAGGATGGCTAAAAGCCGTAAATATCACAGCAACGCTGCCGGTTAACAGAACGACTATAA
1 GTAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAA
49707838 GCCATAAGTATCGCAGAAAGCCT-AAGAGCCTTATACAGGACGGCTACAGGCCGTACATTTC
66 GCCATAAGTATCGCAGAAAGCCTGAA-AGCCTTATACAGGACGGCTACAGGCCGTACATTTC
49707899 CTCCGTCCAT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
126 6 0.05
127 109 0.95
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (126 bp):
GTAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAA
GCCATAAGTATCGCAGAAAGCCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACATTTC
Found at i:49727808 original size:47 final size:47
Alignment explanation
Indices: 49727755--49728133 Score: 553
Period size: 47 Copynumber: 8.1 Consensus size: 47
49727745 TTAGGATTTT
* * * * **
49727755 ATGTGATAAATGTGAACGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49727802 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49727849 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49727896 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49727943 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49727990 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCTGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
49728037 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49728084 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
49728131 ATG
1 ATG
49728134 CGAAATGTGT
Statistics
Matches: 308, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 305 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49727902 original size:22 final size:22
Alignment explanation
Indices: 49727831--49727949 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
49727821 GCATATATGA
49727831 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
49727853 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
49727878 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
49727900 GATGAATG-TGAACAT-G-CATATGTGT
1 GAT-AAGGCCG-A-ATGGCCA-A--TGT
49727925 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
49727947 GAT
1 GAT
49727950 GAATGTGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:49728163 original size:46 final size:46
Alignment explanation
Indices: 49728107--49728289 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
49728097 GGAAGTGTAT
* *
49728107 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49728153 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
49728199 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
49728245 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
49728290 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:49729827 original size:40 final size:40
Alignment explanation
Indices: 49729772--49729848 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
49729762 TGAGAGTTAT
49729772 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
49729812 ATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
49729849 AGTTCCGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:49729850 original size:63 final size:63
Alignment explanation
Indices: 49729782--49729911 Score: 235
Period size: 63 Copynumber: 2.1 Consensus size: 63
49729772 ATATATCCGG
49729782 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAG-TCCTGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCC-GAAGAGCATTCGT
*
49729845 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGT
49729908 GCTA
1 GCTA
49729912 GTGATATATC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 62 0.95
64 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (63 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGT
Found at i:49729858 original size:23 final size:23
Alignment explanation
Indices: 49729822--49729871 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
49729812 ATATATCCGG
49729822 GCTAAGTCCTGAAGAGCATTCGT
1 GCTAAGTCCTGAAGAGCATTCGT
49729845 GCTAAGTTCC-GAAGAGCATTCGT
1 GCTAAG-TCCTGAAGAGCATTCGT
49729868 GCTA
1 GCTA
49729872 GTGATATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (23 bp):
GCTAAGTCCTGAAGAGCATTCGT
Found at i:49729900 original size:40 final size:40
Alignment explanation
Indices: 49729845--49729929 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
49729835 GAGCATTCGT
49729845 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGG
1 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGG
49729885 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGG
1 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGG
49729925 GCTAA
1 GCTAA
49729930 ACCTCGAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGG
Found at i:49729938 original size:40 final size:40
Alignment explanation
Indices: 49729852--49729944 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
49729842 CGTGCTAAGT
**
49729852 TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT
1 TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAACC
49729892 TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACC
1 TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCT-AACC
49729933 T-CGAAG-GCATTC
1 TCCGAAGAGCATTC
49729945 AAGCTGGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
39 6 0.12
40 41 0.82
41 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAACC
Found at i:49733762 original size:27 final size:27
Alignment explanation
Indices: 49733732--49733909 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49733722 ATATTGAGTC
* * * *
49733732 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49733759 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49733786 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49733814 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49733841 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49733868 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49733895 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49733910 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49733871 original size:82 final size:81
Alignment explanation
Indices: 49733753--49733908 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49733743 TGCTATATAA
* *
49733753 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49733818 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49733835 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49733899 CACTTAGTGC
65 CACTTAGTGC
49733909 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49737192 original size:47 final size:47
Alignment explanation
Indices: 49737133--49737557 Score: 629
Period size: 47 Copynumber: 9.1 Consensus size: 47
49737123 TTAGGATTTT
* ** * * * *
49737133 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGACAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737180 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737227 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737274 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737321 ATGTGATG-ATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737367 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49737414 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49737461 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
49737508 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
49737555 ATG
1 ATG
49737558 CGAAATGTGT
Statistics
Matches: 352, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 46 0.13
47 303 0.86
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49737464 original size:187 final size:187
Alignment explanation
Indices: 49737162--49737516 Score: 631
Period size: 187 Copynumber: 1.9 Consensus size: 187
49737152 GTATATATGA
49737162 GATAAGGCCGAATGACAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGACAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
49737227 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACA
66 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACA
* *
49737292 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGATGTGAACATGCATATGTGT
131 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGATGTGAACATGCATATGTGT
* * * *
49737349 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGACAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
49737414 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAA-TGACCAATGTGATGAATGTGAAC
66 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTG-CCAATGTGATGAATGTGAAC
49737478 ATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGA
130 ATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGA
49737517 ACGTGGAAGT
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
186 2 0.01
187 158 0.99
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (187 bp):
GATAAGGCCGAATGACAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGATGTGAACATGCATATGTGT
Found at i:49737587 original size:46 final size:46
Alignment explanation
Indices: 49737531--49737713 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
49737521 GGAAGTGTAT
* * *
49737531 ATATGTGGTAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49737577 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49737623 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATTG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
49737669 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
49737714 TGTATATATA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:49737595 original size:187 final size:184
Alignment explanation
Indices: 49737154--49737603 Score: 564
Period size: 187 Copynumber: 2.4 Consensus size: 184
49737144 GTGAATGTGT
* * * * * *
49737154 ATATATGAGATAAGGCCGAATGACAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
1 ATATATGTGATAAAGCCGAATGGCCAATGCGA-GAATGTGAACATGC--ATATGAGGTAAGGCCG
49737219 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAA
63 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAA
* * *
49737284 TGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGATGTGAACATGC
128 TGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGACGTGAACATGC
* * * *
49737341 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAAGCCGAATGGCCAATGCGA-GAATGTGAACATGCATATGAG-G-TAAGGCCG
*
49737406 AATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAA-TGACCAATGTGATGA
63 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTG-CCAATGTGATGA
* *
49737470 ATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGT
127 ATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATG-ACGT-GAACATGC
* * * * * *
49737529 ATATATGTGGTAAAGTCGAATGGCTAATGCGA-AATGTGTATGAGATGGATATGAGGTAAAGCCG
1 ATATATGTGATAAAGCCGAATGGCCAATGCGAGAATGTG-A--ACATGCATATGAGGTAAGGCCG
*
49737593 AATGGCTAATG
63 AATGGCCAATG
49737604 CAAAACGTGT
Statistics
Matches: 232, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
185 6 0.03
186 8 0.03
187 173 0.75
188 32 0.14
189 13 0.06
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (184 bp):
ATATATGTGATAAAGCCGAATGGCCAATGCGAGAATGTGAACATGCATATGAGGTAAGGCCGAAT
GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATTGCCAATGTGATGAATGT
GAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGACGTGAACATGC
Found at i:49747490 original size:22 final size:22
Alignment explanation
Indices: 49747462--49747516 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
49747452 CAATAAGTCA
*
49747462 ACAGGACGGTTCAACATCGTAG
1 ACAGGACGGCTCAACATCGTAG
* *
49747484 AGAGGACGACTCAACATCGTAG
1 ACAGGACGGCTCAACATCGTAG
49747506 ACAGGACGGCT
1 ACAGGACGGCT
49747517 AAAAGCCGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.15
Consensus pattern (22 bp):
ACAGGACGGCTCAACATCGTAG
Found at i:49747726 original size:127 final size:127
Alignment explanation
Indices: 49747500--49747753 Score: 384
Period size: 127 Copynumber: 2.0 Consensus size: 127
49747490 CGACTCAACA
** * *
49747500 TCGTAGACAGGACGGCTAAAAGCCGTAAATATCGTAGCAACGCTGCCAGTTAACAGAACAGTTAT
1 TCGTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTGCCAGTTAACAGAACAGCTAT
*
49747565 AAGCCATAAGTATCGTAGAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTT
66 AAGCCATAAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTT
* * * *
49747627 TCGTAGACAGGACGGCTAAAGGCCGTAAATATCACAGCAATACTGTCTGTTAACAGAAC-GACTA
1 TCGTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTGCCAGTTAACAGAACAG-CTA
* * *
49747691 TAAGCTATAAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACACTT
65 TAAGCCATAAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTT
49747754 CCTCCGTCCA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 1 0.01
127 113 0.99
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (127 bp):
TCGTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTGCCAGTTAACAGAACAGCTAT
AAGCCATAAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTT
Found at i:49751969 original size:21 final size:22
Alignment explanation
Indices: 49751935--49751975 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49751925 TCATGACCTT
* *
49751935 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
49751957 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
49751976 GTAAAATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:49752725 original size:17 final size:19
Alignment explanation
Indices: 49752689--49752726 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49752679 GTTTATAAGC
49752689 AAATAGATATTGTTAATTTT
1 AAATAGATATTG-TAATTTT
49752709 AAATAGATA-TG-AATTTT
1 AAATAGATATTGTAATTTT
49752726 A
1 A
49752727 TATGCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
AAATAGATATTGTAATTTT
Found at i:49756286 original size:40 final size:41
Alignment explanation
Indices: 49756088--49756272 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
49756078 TCGAATGATG
* * * *
49756088 TCCGGGCTAAGTCCCGAAGGC-TTTGCGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
49756128 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49756168 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
49756207 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49756248 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49756273 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:49761835 original size:16 final size:17
Alignment explanation
Indices: 49761814--49761849 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
49761804 CATAGCAGTC
49761814 GGTTATCTATTCACT-G
1 GGTTATCTATTCACTCG
49761830 GGTTATCTATTCACTCG
1 GGTTATCTATTCACTCG
49761847 GGT
1 GGT
49761850 AGTACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (17 bp):
GGTTATCTATTCACTCG
Found at i:49763415 original size:21 final size:22
Alignment explanation
Indices: 49763381--49763421 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49763371 TCATGACCTT
* *
49763381 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
49763403 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
49763422 GTAAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:49766521 original size:43 final size:43
Alignment explanation
Indices: 49766436--49766538 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
49766426 TTGAATTTGA
*
49766436 GGCACTAAGTGTGCGATAAATAAAATAGCTACGGCTAATTAATT
1 GGCACTAAGTGTGCGATAAAT-AAATAGCTACAGCTAATTAATT
* * *
49766480 GTCACTAAGTGTGCGATACAAT-TATAGCTTCAGCTAATTAATT
1 GGCACTAAGTGTGCGATA-AATAAATAGCTACAGCTAATTAATT
49766523 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49766539 GTTCATTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
43 33 0.62
44 17 0.32
45 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATAAATAAATAGCTACAGCTAATTAATT
Found at i:49769491 original size:51 final size:51
Alignment explanation
Indices: 49769432--49769534 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
49769422 GCCTTGAACA
* * *
49769432 CGGCCTTCAGTAATCGCACACGGGCTTGTCCTTGCCGAACCCAAGTTTAGT
1 CGGCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGT
*
49769483 CGGCCTTCAGTAATCGCACATGGGCGTGTCCCTGCCAAACCCAAGTTTAGT
1 CGGCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGT
49769534 C
1 C
49769535 CAATTCAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.24
Consensus pattern (51 bp):
CGGCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGT
Found at i:49774239 original size:43 final size:43
Alignment explanation
Indices: 49774154--49774342 Score: 254
Period size: 43 Copynumber: 4.4 Consensus size: 43
49774144 TTGAATTTAG
* * * *
49774154 GGCACTAAGTGTCCGATA-AATGAAATAGCTACGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAAT--TATAGCTTCAGCTAATTAATT
* * **
49774198 AGCACTAAGTGTGCGATACAGTTATAGCCCCAGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
49774241 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCAAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
49774284 GGCACTAAGTGTGCGATACAATTATATCTTCAGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
49774327 GGAACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49774343 GTTCGTTGAA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 111 0.86
44 16 0.12
45 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
Found at i:49776201 original size:37 final size:37
Alignment explanation
Indices: 49776151--49776229 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49776141 TTATTACGAA
* * *
49776151 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49776188 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49776225 GTCTT
1 GTCTT
49776230 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49776426 original size:47 final size:47
Alignment explanation
Indices: 49776348--49776897 Score: 965
Period size: 47 Copynumber: 11.6 Consensus size: 47
49776338 CCCTTCGGGA
* * * * * *
49776348 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49776395 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776585 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776775 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49776824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49776871 CTTATCACATATATACACATTCACATT
1 CTTATCACATATATACACTTTCACATT
49776898 ACCAACCCTT
Statistics
Matches: 486, Mismatches: 11, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
47 345 0.71
49 141 0.29
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49776545 original size:96 final size:94
Alignment explanation
Indices: 49776348--49776897 Score: 965
Period size: 96 Copynumber: 5.8 Consensus size: 94
49776338 CCCTTCGGGA
* * * * * * * *
49776348 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49776413 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
49776442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
49776507 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49776538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49776603 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
49776632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49776697 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49776728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
49776793 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49776824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49776889 ATTCACATT
66 TTTCACATT
49776898 ACCAACCCTT
Statistics
Matches: 441, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
94 159 0.36
96 282 0.64
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:49776617 original size:143 final size:143
Alignment explanation
Indices: 49776348--49776897 Score: 1014
Period size: 143 Copynumber: 3.9 Consensus size: 143
49776338 CCCTTCGGGA
* * * * * * *
49776348 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49776411 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49776476 TCGGCCATTAGGC
131 TCGGCCATTAGGC
49776489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49776554 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49776619 TCGGCCATTAGGC
131 TCGGCCATTAGGC
49776632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49776697 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49776762 TCGGCCATTAGGC
131 TCGGCCATTAGGC
49776775 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49776840 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATTCACATT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
49776898 ACCAACCCTT
Statistics
Matches: 399, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 388 0.97
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:49777213 original size:40 final size:40
Alignment explanation
Indices: 49777124--49777222 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
49777114 GCTACTCGTT
* * * *
49777124 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGCTATAGTAACTAGCA
* *
49777164 CAAATGCCTTCGGGACTTAACCCGGCTATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGCTATAGTAAC-TAGCA
49777205 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
49777223 GCCCAGACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 44 0.85
41 8 0.15
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGCTATAGTAACTAGCA
Found at i:49781180 original size:40 final size:40
Alignment explanation
Indices: 49781074--49781189 Score: 166
Period size: 39 Copynumber: 3.0 Consensus size: 40
49781064 TCTTCGAGGT
* * *
49781074 TTAGCACGGATATAT--CTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
49781112 TTAGCCTGGATA-CTCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
49781151 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGA
49781190 ATTTGCGATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 10 0.15
39 32 0.47
40 25 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:49781209 original size:40 final size:39
Alignment explanation
Indices: 49781074--49781192 Score: 147
Period size: 40 Copynumber: 3.1 Consensus size: 39
49781064 TCTTCGAGGT
*
49781074 TTAGCACGGATATAT--CTAGCACGAATGCTCTTC-GGAA
1 TTAGC-CGGATATATCACTAGCACGAATGCTCCTCGGGAA
* *
49781111 CTTAGCCTGGATA-CTCACTAGCACGAATGCTCCTCGGGAC
1 -TTAGCC-GGATATATCACTAGCACGAATGCTCCTCGGGAA
49781151 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAA
1 TTAG-CCGGATATATCACTAGCACGAATGCTCCTCGGGAA
49781191 TT
1 TT
49781193 TGCGATATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.03
38 10 0.14
39 26 0.37
40 32 0.46
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCGGATATATCACTAGCACGAATGCTCCTCGGGAA
Found at i:49781514 original size:40 final size:40
Alignment explanation
Indices: 49781459--49781713 Score: 394
Period size: 40 Copynumber: 6.5 Consensus size: 40
49781449 GAGAATTGAG
*
49781459 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
49781499 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
49781539 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
49781579 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGC-
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
49781617 AGTTGATATATCCGGGCT-AGTCCCG-GGAGCATTCGTGCT
1 AG-TGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
49781656 AGTGATGTATCCAGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
49781696 AGT-AAATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
49781714 ACCTCGAAGA
Statistics
Matches: 199, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 31 0.16
39 54 0.27
40 114 0.57
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:49781579 original size:23 final size:23
Alignment explanation
Indices: 49781513--49781579 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
49781503 ATATATCCGG
49781513 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * *
49781536 GCT-AGT---GA-TA-TATTCGG
1 GCTAAGTCCCGAGGAGCATTCGT
49781553 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
49781576 GCTA
1 GCTA
49781580 GTGATATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 8 0.25
18 4 0.12
19 2 0.06
21 2 0.06
22 4 0.12
23 12 0.38
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAGGAGCATTCGT
Found at i:49785640 original size:40 final size:41
Alignment explanation
Indices: 49785558--49785660 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 41
49785548 AATGATGTCT
*
49785558 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAGCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACC
* * * *
49785598 GGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACC
*
49785638 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
49785661 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 48 0.87
41 7 0.13
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACC
Found at i:49785928 original size:22 final size:22
Alignment explanation
Indices: 49785903--49785977 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
49785893 ATGTGTATAT
49785903 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ****
49785925 ATGTGATGAATGTGAAAGTGTATT
1 ATGTGAT-AAGGCCTAA-TGGCCG
49785949 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
49785971 ATGTGAT
1 ATGTGAT
49785978 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 16 0.46
23 10 0.29
24 9 0.26
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:49786069 original size:95 final size:94
Alignment explanation
Indices: 49785886--49786429 Score: 893
Period size: 95 Copynumber: 5.8 Consensus size: 94
49785876 AAGGGTTGGT
* *
49785886 AATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TA
1 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
49785950 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
49785979 AATGTGAAAGTGTATATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATATG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
49786044 ATGTGATAAGGCCTAATGGCCGATGTGATG
65 ATGTGATAAGGCCTAATGGCCGATGTGATG
*
49786074 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATT
1 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-T
49786139 ATGTGATAAGGCCTAATGGCCGATGTGATG
65 ATGTGATAAGGCCTAATGGCCGATGTGATG
49786169 AATGTGAAAGTGTATATAGT-TGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATA-TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
49786232 ATATGTGATAAGGCCTAATGGCCGATGTGATG
63 ATATGTGATAAGGCCTAATGGCCGATGTGATG
49786264 AATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATA-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
49786329 ATGTGATAAGGCCTAATGGCCGATGTGATG
65 ATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
49786359 AATGTGAAAGTG--TATATATGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
49786421 AGTGATAAG
66 TGTGATAAG
49786430 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 11, Indels: 20
0.93 0.02 0.04
Matches are distributed among these distances:
91 9 0.02
92 36 0.08
93 26 0.06
94 102 0.24
95 215 0.50
96 23 0.05
97 20 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:49786071 original size:47 final size:47
Alignment explanation
Indices: 49785886--49786429 Score: 902
Period size: 47 Copynumber: 11.6 Consensus size: 47
49785876 AAGGGTTGGT
*
49785886 AATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49785933 AATGTGAAAGTGTAT-TATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49785979 AATGTGAAAGTGTATATATATGTATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATG
49786027 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49786074 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49786121 AATGTGAAAGTGTATATTATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATA-TATGTGATAAGGCCTAATGGCCGATGTGATG
49786169 AATGTGAAAGTGTATATA-GTTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATG-TGATAAGGCCTAATGGCCGATGTGATG
49786215 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
49786264 AATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCGATGTGATG
49786312 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
49786359 AATGTGAAAGTGTATATA--TGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49786404 GATGTGAAAGTGTATA-AAGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
49786430 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 12, Indels: 23
0.93 0.02 0.05
Matches are distributed among these distances:
44 1 0.00
45 36 0.08
46 72 0.15
47 180 0.38
48 164 0.35
49 21 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:49789420 original size:27 final size:27
Alignment explanation
Indices: 49789390--49789567 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49789380 ATATTGAGTC
* * * *
49789390 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49789417 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49789444 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49789472 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49789499 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49789526 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49789553 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49789568 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49789529 original size:82 final size:81
Alignment explanation
Indices: 49789411--49789566 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49789401 TGCTATATAA
* *
49789411 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49789476 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49789493 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49789557 CACTTAGTGC
65 CACTTAGTGC
49789567 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49797468 original size:27 final size:27
Alignment explanation
Indices: 49797438--49797615 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49797428 ATATTGAGTC
* * * *
49797438 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49797465 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49797492 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49797520 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49797547 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49797574 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49797601 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49797616 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49797577 original size:82 final size:81
Alignment explanation
Indices: 49797459--49797614 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49797449 TGCTATATAA
* *
49797459 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49797524 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49797541 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49797605 CACTTAGTGC
65 CACTTAGTGC
49797615 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49806912 original size:15 final size:13
Alignment explanation
Indices: 49806883--49806909 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49806873 GCTCGGTAGG
49806883 GACACGCCCGTGT
1 GACACGCCCGTGT
49806896 GACACGCCCGTGT
1 GACACGCCCGTGT
49806909 G
1 G
49806910 TGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49807777 original size:17 final size:18
Alignment explanation
Indices: 49807748--49807783 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
49807738 AAATATGCAT
49807748 ACATAGTTTTTTTTTAAG
1 ACATAGTTTTTTTTTAAG
49807766 ACATAG-TTTTTTTTAAG
1 ACATAGTTTTTTTTTAAG
49807783 A
1 A
49807784 ACAAGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (18 bp):
ACATAGTTTTTTTTTAAG
Found at i:49814989 original size:28 final size:28
Alignment explanation
Indices: 49814945--49815002 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
49814935 TGACATAATT
* *
49814945 AGTTAGAGAAATTATAATTTAGTAGTAA
1 AGTTAGAGAAATGATAATTGAGTAGTAA
49814973 AGTTAGAGAAATGATAATTGAGTAGTAA
1 AGTTAGAGAAATGATAATTGAGTAGTAA
49815001 AG
1 AG
49815003 ATGTCTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (28 bp):
AGTTAGAGAAATGATAATTGAGTAGTAA
Found at i:49824284 original size:20 final size:20
Alignment explanation
Indices: 49824261--49824300 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
49824251 ACACCCATGG
49824261 GGCTCGGGACACGCCCGTGT
1 GGCTCGGGACACGCCCGTGT
49824281 GGCTCGGGACACGCCCGTGT
1 GGCTCGGGACACGCCCGTGT
49824301 CCTTAGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.35, G:0.40, T:0.15
Consensus pattern (20 bp):
GGCTCGGGACACGCCCGTGT
Found at i:49825731 original size:27 final size:27
Alignment explanation
Indices: 49825693--49825747 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
49825683 GTAACTTAGG
*
49825693 TAGCAATAATGCATTGCTAGATGCCAC
1 TAGCAATAATGCATTACTAGATGCCAC
* *
49825720 TAGCAATGATGCATTACTAGATGTCAC
1 TAGCAATAATGCATTACTAGATGCCAC
49825747 T
1 T
49825748 CATTATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (27 bp):
TAGCAATAATGCATTACTAGATGCCAC
Found at i:49834823 original size:40 final size:39
Alignment explanation
Indices: 49834759--49834842 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
49834749 TTTATATATA
*
49834759 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCA-TTT
* * * **
49834799 TAGCCGAAGTTATTTCGAACTGCACAGTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCATTT
49834838 TAGCC
1 TAGCC
49834843 AATAAGTCGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCATTT
Found at i:49838441 original size:19 final size:20
Alignment explanation
Indices: 49838417--49838454 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49838407 GGTACCACCA
49838417 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
49838436 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
49838455 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:49838928 original size:85 final size:85
Alignment explanation
Indices: 49838785--49838961 Score: 345
Period size: 85 Copynumber: 2.1 Consensus size: 85
49838775 GGCTGGCCAT
*
49838785 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGAGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
49838850 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
49838870 GAGCATGAGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGAGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
49838935 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
49838955 GAGCATG
1 GAGCATG
49838962 GGCAATAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGAGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:49840236 original size:39 final size:40
Alignment explanation
Indices: 49840128--49840312 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
49840118 TCGAATGATG
* * *
49840128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
49840167 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
49840208 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTAATAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
49840248 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
49840286 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
49840313 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
38 2 0.02
39 28 0.23
40 80 0.67
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:49840334 original size:79 final size:79
Alignment explanation
Indices: 49840183--49840345 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
49840173 ACTAAGATCT
* **
49840183 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTAATAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAAAT
* *
49840248 TCGGGTTAAGTCCC
66 TCCGGTTAAATCCC
* * * *
49840262 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-ATA
* *
49840325 TA-TCCGGTTAAATTCC
63 AATTCCGGTTAAATCCC
49840341 GAAGG
1 GAAGG
49840346 TACGTGATTC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.69
80 20 0.29
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAAAT
TCCGGTTAAATCCC
Found at i:49845134 original size:28 final size:28
Alignment explanation
Indices: 49845077--49845256 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
49845067 TAAATTGTGC
* *
49845077 AGCACTAAGTGTGCGA-ATTGAATATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49845104 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49845132 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49845160 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
49845187 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
49845215 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
49845242 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49845257 GACTTAATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
27 65 0.45
28 79 0.55
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:49845142 original size:55 final size:54
Alignment explanation
Indices: 49845077--49845256 Score: 270
Period size: 55 Copynumber: 3.3 Consensus size: 54
49845067 TAAATTGTGC
49845077 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAG-TTGACTATGT
* *
49845132 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
49845187 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
49845242 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49845257 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 1 0.01
55 89 0.77
56 26 0.22
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:49845192 original size:83 final size:82
Alignment explanation
Indices: 49845077--49845256 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
49845067 TAAATTGTGC
*
49845077 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
49845142 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* * *
49845160 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
49845225 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
49845242 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49845257 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 22 0.24
83 68 0.76
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:49850331 original size:85 final size:85
Alignment explanation
Indices: 49850188--49850366 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
49850178 GGCCGGCCAT
49850188 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
49850253 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
49850273 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
49850338 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
49850358 GAGCATGGG
1 GAGCATGGG
49850367 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:49851667 original size:79 final size:81
Alignment explanation
Indices: 49851531--49851713 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
49851521 TCGAATGATG
* *
49851531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
49851595 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
49851610 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
49851672 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
49851690 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
49851714 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:49851729 original size:40 final size:40
Alignment explanation
Indices: 49851532--49851715 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
49851522 CGAATGATGT
* * * *
49851532 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
49851572 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
49851612 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49851650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49851691 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49851716 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:49851737 original size:79 final size:79
Alignment explanation
Indices: 49851584--49851748 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
49851574 GGACTAAGAT
* **
49851584 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
49851649 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
49851663 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
49851726 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
49851742 CCGAAGG
1 CCGAAGG
49851749 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:49860453 original size:28 final size:27
Alignment explanation
Indices: 49860385--49860500 Score: 163
Period size: 24 Copynumber: 4.4 Consensus size: 27
49860375 GATATGACAT
*
49860385 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
49860412 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
49860437 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
49860464 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
49860488 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
49860501 GAAATTTCTC
Statistics
Matches: 80, Mismatches: 1, Indels: 15
0.83 0.01 0.16
Matches are distributed among these distances:
24 44 0.55
25 3 0.04
27 3 0.04
28 30 0.38
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:49860454 original size:52 final size:52
Alignment explanation
Indices: 49860385--49860500 Score: 214
Period size: 52 Copynumber: 2.2 Consensus size: 52
49860375 GATATGACAT
49860385 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
49860437 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
49860489 TGTGCTAAGTGA
1 TGTGCTAAGTGA
49860501 GAAATTTCTC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:49860579 original size:51 final size:51
Alignment explanation
Indices: 49860524--49860666 Score: 245
Period size: 51 Copynumber: 2.8 Consensus size: 51
49860514 TGAACCTTAG
49860524 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGTCA-CTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGG-CATCTTTGT
*
49860575 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCATCTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCATCTTTGT
49860626 GAATAAAATAGCTTTGG-CTACAAGTGTGGTACTATGTGAAG
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAG
49860667 CCCACCGTGT
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
50 3 0.03
51 85 0.97
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCATCTTTGT
Found at i:49865124 original size:43 final size:43
Alignment explanation
Indices: 49865077--49865179 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
49865067 CAAATAGGGT
* *
49865077 CTTACACGA-AATCA-AATAACGATGCCAATCTCCCGGACATGGA
1 CTTACAC-ATAATCACAAT-ACAATGCCAATCTCCCAGACATGGA
* * *
49865120 CTTACACATAATTACAATACAATGCCAATGTCCCAGACATGGT
1 CTTACACATAATCACAATACAATGCCAATCTCCCAGACATGGA
49865163 CTTA-ACATGTAATCACA
1 CTTACACA--TAATCACA
49865180 TCTCGGTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
42 4 0.08
43 36 0.72
44 10 0.20
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (43 bp):
CTTACACATAATCACAATACAATGCCAATCTCCCAGACATGGA
Found at i:49870095 original size:51 final size:51
Alignment explanation
Indices: 49870018--49870165 Score: 255
Period size: 51 Copynumber: 2.9 Consensus size: 51
49870008 CGGATACACT
*
49870018 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
49870069 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCT-TTTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTT-TATTCACAAA
49870120 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
49870166 CTAAGGTTCA
Statistics
Matches: 93, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
50 4 0.04
51 86 0.92
52 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:49870239 original size:24 final size:24
Alignment explanation
Indices: 49870201--49870248 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
49870191 ACTTAGCACA
*
49870201 ATGCCACGGACTTATTTCACTTAG
1 ATGCCACGGAATTATTTCACTTAG
*
49870225 ATGCCATGGAATTATTTCACTTAG
1 ATGCCACGGAATTATTTCACTTAG
49870249 CACATTGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (24 bp):
ATGCCACGGAATTATTTCACTTAG
Found at i:49876964 original size:51 final size:51
Alignment explanation
Indices: 49876887--49877034 Score: 242
Period size: 51 Copynumber: 2.9 Consensus size: 51
49876877 CGGATACATG
* * *
49876887 GTGGCCTTCACATAGAACCACCCTTGTGTCCAAAGCTATTTTATTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
49876938 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
49876989 GTGGCCTTCACATAGTATCATACTTTTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
49877035 CTAAGGTTCA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:49879536 original size:24 final size:24
Alignment explanation
Indices: 49879504--49879553 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
49879494 TGTCAAGTAC
49879504 TAGTTATTTTCTCCTTTCTCCTAT
1 TAGTTATTTTCTCCTTTCTCCTAT
49879528 TAGTTATTTTCTCCTTTCTCCTAT
1 TAGTTATTTTCTCCTTTCTCCTAT
49879552 TA
1 TA
49879554 TCTTTCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.04, T:0.58
Consensus pattern (24 bp):
TAGTTATTTTCTCCTTTCTCCTAT
Found at i:49881553 original size:39 final size:40
Alignment explanation
Indices: 49881436--49881659 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
49881426 GCTACTCGTT
* *
49881436 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
49881476 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
49881516 CAAATGCCTTCGGG-CTTAGCCCGGAATCAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
49881555 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * **
49881594 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
49881635 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49881660 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:49881603 original size:78 final size:80
Alignment explanation
Indices: 49881436--49881606 Score: 258
Period size: 78 Copynumber: 2.2 Consensus size: 80
49881426 GCTACTCGTT
*
49881436 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
49881501 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
49881516 CAAATGCCTTCGGG-CTTAGCCCGG-AATCAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGTAAT-AGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
49881578 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
49881594 CAAATGCCTTCGG
1 CAAATGCCTTCGG
49881607 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
78 37 0.44
79 33 0.39
80 14 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:49881613 original size:79 final size:78
Alignment explanation
Indices: 49881436--49881659 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
49881426 GCTACTCGTT
* *
49881436 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
49881501 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
49881516 CAAATGCCTTCGGGCTTAGCCCGGAATCAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGAAT-AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
49881580 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * ** *
49881594 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAACACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
49881658 GA
63 GA
49881660 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 37 0.30
79 57 0.46
80 31 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTCGCA
Found at i:49884999 original size:49 final size:50
Alignment explanation
Indices: 49884926--49885137 Score: 185
Period size: 49 Copynumber: 4.3 Consensus size: 50
49884916 TGAGGTCATG
* * *
49884926 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATTAGGTCACA
* ** * * * *
49884975 TGTGTAGTACTAAGTGCAACCTACTATACGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAA-TTAGGTCACA
* * * * * * ** *
49885026 TGTGTGGTACTAAGTGTAGGCTACTATGCGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATTAGGTCACA
* * * *
49885076 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGAATAGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATTAGGTCACA
*
49885125 TGTGTAGTGCTAA
1 TGTGTAGTACTAA
49885138 CAGTAGGCTA
Statistics
Matches: 129, Mismatches: 32, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
49 51 0.40
50 43 0.33
51 35 0.27
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATTAGGTCACA
Found at i:49885036 original size:51 final size:50
Alignment explanation
Indices: 49884925--49885101 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 50
49884915 GTGAGGTCAT
* *** * * * *
49884925 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGC
1 GTGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATACTTAGATCAC
* * * *
49884974 ATGTGTAGTACTAAGTGCAACCTACTATACGTACCCGATAACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGAT-ACTTAGATCAC
* * * * * ** *
49885025 GTGTGTGGTACTAAGTGTAGGCTACTATGCGTATCAGATGGTTAGGTCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATACTTAGATCAC
49885075 GTGTGTAGTACTAAGTGCAAGCTACTA
1 GTGTGTAGTACTAAGTGCAAGCTACTA
49885102 CGTGTACCGA
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
49 32 0.32
50 34 0.34
51 35 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATACTTAGATCAC
Found at i:49885382 original size:16 final size:16
Alignment explanation
Indices: 49885361--49885398 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
49885351 AAATAGATTA
49885361 AGTGAAATTATATAAG
1 AGTGAAATTATATAAG
49885377 AGTGAAATTATATAAG
1 AGTGAAATTATATAAG
49885393 AGTGAA
1 AGTGAA
49885399 TTTTAGTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (16 bp):
AGTGAAATTATATAAG
Found at i:49886424 original size:112 final size:112
Alignment explanation
Indices: 49886227--49886449 Score: 446
Period size: 112 Copynumber: 2.0 Consensus size: 112
49886217 GATATGTATT
49886227 ATTATTATGACTTTGACCATACATATTAGTCTGCATTGAGTTATCGTATATGATCATGAGATGTG
1 ATTATTATGACTTTGACCATACATATTAGTCTGCATTGAGTTATCGTATATGATCATGAGATGTG
49886292 GTCCTTATCCATTATGGTTTATAAGTTTAATTAATCATGCCATATCA
66 GTCCTTATCCATTATGGTTTATAAGTTTAATTAATCATGCCATATCA
49886339 ATTATTATGACTTTGACCATACATATTAGTCTGCATTGAGTTATCGTATATGATCATGAGATGTG
1 ATTATTATGACTTTGACCATACATATTAGTCTGCATTGAGTTATCGTATATGATCATGAGATGTG
49886404 GTCCTTATCCATTATGGTTTATAAGTTTAATTAATCATGCCATATC
66 GTCCTTATCCATTATGGTTTATAAGTTTAATTAATCATGCCATATC
49886450 CTATGTTTAG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (112 bp):
ATTATTATGACTTTGACCATACATATTAGTCTGCATTGAGTTATCGTATATGATCATGAGATGTG
GTCCTTATCCATTATGGTTTATAAGTTTAATTAATCATGCCATATCA
Found at i:49887704 original size:20 final size:20
Alignment explanation
Indices: 49887433--49887691 Score: 306
Period size: 20 Copynumber: 12.9 Consensus size: 20
49887423 GTAGACCTAC
* *
49887433 TGATGGCTTTGTGCTGCTAC
1 TGATGGCTTTGTGCCGCTAT
*
49887453 TGATGGCTTTGTGCTGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
49887473 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
** *
49887493 TGACAGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
** *
49887513 TGACAGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
49887533 TGATGGCTTTGTGCTGCTAC
1 TGATGGCTTTGTGCCGCTAT
**
49887553 TGATGGCTTTGTGCCATTAT
1 TGATGGCTTTGTGCCGCTAT
* *
49887573 TGATGGCTTTGTGCTGCTAC
1 TGATGGCTTTGTGCCGCTAT
49887593 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
49887613 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
** *
49887633 TGATGGCTTTGCACGGCTAT
1 TGATGGCTTTGTGCCGCTAT
49887653 TGATGGCTTTGCATG--GCTAT
1 TGATGGCTTTG--TGCCGCTAT
49887673 TGATGGCTTTGTGCCGCTA
1 TGATGGCTTTGTGCCGCTA
49887692 CTCATGGTTT
Statistics
Matches: 208, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
18 2 0.01
20 206 0.99
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:49887752 original size:26 final size:26
Alignment explanation
Indices: 49887723--49887793 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
49887713 CTAATATTGC
* * *
49887723 CAGCTTTGTTGCGTTACTGTTACTGG
1 CAGCTTTGCTGCGATACTATTACTGG
*
49887749 CAGCTTTGCTGCGATATTATTACTGG
1 CAGCTTTGCTGCGATACTATTACTGG
*
49887775 CAGCTATGCTGCGATACTA
1 CAGCTTTGCTGCGATACTA
49887794 GTGTGTTGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (26 bp):
CAGCTTTGCTGCGATACTATTACTGG
Found at i:49890714 original size:40 final size:40
Alignment explanation
Indices: 49890670--49890746 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
49890660 CTGACTTGTT
*
49890670 TGAAAAACATTTTGA--TGTGTTAAAATGATTTTAACTTGAC
1 TGAAAAA-ATTTTGACTTG-GTTAAAATCATTTTAACTTGAC
* *
49890710 TGAAATAATTTTGACTTGGTTAAAATCATTTTCACTT
1 TGAAAAAATTTTGACTTGGTTAAAATCATTTTAACTT
49890747 CATTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 7 0.22
40 23 0.72
41 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (40 bp):
TGAAAAAATTTTGACTTGGTTAAAATCATTTTAACTTGAC
Found at i:49890735 original size:20 final size:20
Alignment explanation
Indices: 49890688--49890746 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
49890678 ATTTTGATGT
*
49890688 GTTAAAATGATTTTAACTTG
1 GTTAAAATAATTTTAACTTG
** * *
49890708 ACTGAAATAATTTTGACTTG
1 GTTAAAATAATTTTAACTTG
* *
49890728 GTTAAAATCATTTTCACTT
1 GTTAAAATAATTTTAACTT
49890747 CATTTTAAAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (20 bp):
GTTAAAATAATTTTAACTTG
Found at i:49894513 original size:13 final size:13
Alignment explanation
Indices: 49894495--49894520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49894485 GCTCATTTTG
49894495 ATTCAAAAATTTC
1 ATTCAAAAATTTC
49894508 ATTCAAAAATTTC
1 ATTCAAAAATTTC
49894521 TGAAGTATAT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTCAAAAATTTC
Found at i:49901167 original size:46 final size:46
Alignment explanation
Indices: 49901117--49901292 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49901107 TGTTTGGGCA
49901117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49901163 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49901208 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49901256 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49901293 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49901272 original size:93 final size:93
Alignment explanation
Indices: 49901113--49901285 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
49901103 AGGATGTTTG
* *
49901113 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49901178 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49901206 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49901271 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
49901286 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49902837 original size:40 final size:40
Alignment explanation
Indices: 49902800--49902982 Score: 198
Period size: 39 Copynumber: 4.7 Consensus size: 40
49902790 GCTACTCGTT
*
49902800 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
49902840 CAATTGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* **
49902879 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCTCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
49902918 C-AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
49902958 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49902983 CATTATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
37 2 0.02
38 9 0.07
39 70 0.58
40 35 0.29
41 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49902966 original size:78 final size:80
Alignment explanation
Indices: 49902800--49902987 Score: 224
Period size: 78 Copynumber: 2.4 Consensus size: 80
49902790 GCTACTCGTT
* ** **
49902800 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAATTGCCTTCGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGACATTAGTCTCTCGCACAATTGCCTTCGGACTTAACCCGG
* *
49902864 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
**
49902879 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCTCTCGCACAA-TGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGACATTAGTCTCTCGCACAATTGCCTTCGGA-CTTAACCCG
* *
49902941 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
49902958 CAAA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGGACTTAGCCCGGACATTA
49902988 TTCAAATAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
77 11 0.12
78 46 0.49
79 33 0.35
80 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGACATTAGTCTCTCGCACAATTGCCTTCGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:49915403 original size:40 final size:40
Alignment explanation
Indices: 49915359--49915476 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
49915349 AAAAGGCAGT
49915359 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCAC
1 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCAC
*
49915399 TATAGATCGAGCATTAGTGGCGCTTTTTG-AAAACGCCAC
1 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCAC
* * * * *
49915438 TATAGGTCGACCATTAGCGACACTTTTTGAAATACGCCA
1 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCA
49915477 AAAAAATTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 34 0.49
40 36 0.51
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCAC
Found at i:49915453 original size:39 final size:39
Alignment explanation
Indices: 49915359--49915476 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
49915349 AAAAGGCAGT
49915359 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCAC
1 TATAGATCGAGCATTAGCGGCGCTTTTTG-AAAACGCCAC
*
49915399 TATAGATCGAGCATTAGTGGCGCTTTTTGAAAACGCCAC
1 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAACGCCAC
* * * *
49915438 TATAGGTCGACCATTAGCGACACTTTTTGAAATACGCCA
1 TATAGATCGAGCATTAGCGGCGCTTTTTGAAA-ACGCCA
49915477 AAAAAATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
39 37 0.52
40 34 0.48
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (39 bp):
TATAGATCGAGCATTAGCGGCGCTTTTTGAAAACGCCAC
Found at i:49915574 original size:20 final size:20
Alignment explanation
Indices: 49915549--49915586 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49915539 GAAAAACGCC
49915549 GCTATAGATCGAACATTACT
1 GCTATAGATCGAACATTACT
* *
49915569 GCTATAGGTCGACCATTA
1 GCTATAGATCGAACATTA
49915587 GCGGCGCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (20 bp):
GCTATAGATCGAACATTACT
Found at i:49915714 original size:21 final size:21
Alignment explanation
Indices: 49915690--49915730 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49915680 TAACTAGTTC
49915690 ATTTATAT-TAATTAGAATATA
1 ATTTATATCTAATT-GAATATA
*
49915711 ATTTATTTCTAATTGAATAT
1 ATTTATATCTAATTGAATAT
49915731 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTATATCTAATTGAATATA
Found at i:49916349 original size:19 final size:18
Alignment explanation
Indices: 49916325--49916387 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
49916315 AAATTATAAC
49916325 AAATTTTTTTAATATTTTG
1 AAATTTTTTT-ATATTTTG
*
49916344 AAA-TTTTTTGT-TTTTG
1 AAATTTTTTTATATTTTG
* *
49916360 TTATTTTTTTTATATTTTG
1 -AAATTTTTTTATATTTTG
49916379 AAATTTTTT
1 AAATTTTTT
49916388 ATTTTTGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 20 0.57
19 8 0.23
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (18 bp):
AAATTTTTTTATATTTTG
Found at i:49916358 original size:16 final size:16
Alignment explanation
Indices: 49916329--49916394 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 16
49916319 TATAACAAAT
49916329 TTTTTTAATATTTTGAAA
1 TTTTTT-AT-TTTTGAAA
* **
49916347 TTTTTTGTTTTTGTTATT
1 TTTTTTATTTTTG--AAA
49916365 TTTTTTATATTTTGAAA
1 TTTTTTAT-TTTTGAAA
49916382 TTTTTTATTTTTG
1 TTTTTTATTTTTG
49916395 TTTTTGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.26
17 10 0.26
18 14 0.36
19 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.73
Consensus pattern (16 bp):
TTTTTTATTTTTGAAA
Found at i:49916387 original size:36 final size:35
Alignment explanation
Indices: 49916327--49916406 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
49916317 ATTATAACAA
* *
49916327 ATTTTTTTAATATTTTGAAATTTTTTGTTTTTGTT
1 ATTTTTTTTATATTTTGAAATTTTTTATTTTTGTT
49916362 ATTTTTTTTATATTTTGAAATTTTTTATTTTTGTT
1 ATTTTTTTTATATTTTGAAATTTTTTATTTTTGTT
*
49916397 TTTGTTTTTT
1 ATT-TTTTTT
49916407 TACATAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 35 0.85
36 6 0.15
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (35 bp):
ATTTTTTTTATATTTTGAAATTTTTTATTTTTGTT
Found at i:49916514 original size:22 final size:21
Alignment explanation
Indices: 49916474--49916531 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
49916464 TAAATTTTAA
*
49916474 AAAAATTATTTAAAATTAATAT
1 AAAAATTA-TAAAAATTAATAT
**
49916496 AAAGGTTATAAAAATTTAATAT
1 AAAAATTATAAAAA-TTAATAT
49916518 AAAAATTATAAAAA
1 AAAAATTATAAAAA
49916532 AGTCAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAAATTATAAAAATTAATAT
Found at i:49920966 original size:42 final size:41
Alignment explanation
Indices: 49920892--49921067 Score: 144
Period size: 42 Copynumber: 4.2 Consensus size: 41
49920882 ATTTGATATG
* *
49920892 GTCTTTAGTGGCGTTTTTAGGGAAA--GCCTTGTTAAAGGTCAT
1 GTCTTTAGTGGCG-TTTGAGAGAAAGTGCC--GTTAAAGGTCAT
* **
49920934 GTCTTTAGTGGCGTTTGAGAAGAAAATGTTGTT-AAGGATCAT
1 GTCTTTAGTGGCGTTTGAG-AGAAAGTGCCGTTAAAGG-TCAT
* * * * *
49920976 GTTTTTAGCGGCGTTTGAGGAGAAAGTGCCATTAAAGATTAT
1 GTCTTTAGTGGCGTTTGA-GAGAAAGTGCCGTTAAAGGTCAT
* *
49921018 GTTTTTAGTGGCAGTTT-AGAGAAAGTGCCGTTAAAGGTTAT
1 GTCTTTAGTGGC-GTTTGAGAGAAAGTGCCGTTAAAGGTCAT
49921059 GTTCTTTAG
1 G-TCTTTAG
49921068 CGGAGTTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
41 31 0.28
42 70 0.64
43 8 0.07
44 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (41 bp):
GTCTTTAGTGGCGTTTGAGAGAAAGTGCCGTTAAAGGTCAT
Found at i:49921045 original size:41 final size:43
Alignment explanation
Indices: 49920965--49921075 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 43
49920955 GAAAATGTTG
* *
49920965 TTAAGGATCATGTTTTTAGCGGC-GTTTGAGGAGAAAGTGCCA
1 TTAAAGATTATGTTTTTAGCGGCAGTTTGAGGAGAAAGTGCCA
* *
49921007 TTAAAGATTATGTTTTTAGTGGCAGTTT-A-GAGAAAGTGCCG
1 TTAAAGATTATGTTTTTAGCGGCAGTTTGAGGAGAAAGTGCCA
*
49921048 TTAAAGGTTATGTTCTTTAGCGG-AGTTT
1 TTAAAGATTATGTT-TTTAGCGGCAGTTT
49921076 TTAGCGGCGC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 29 0.48
42 28 0.46
43 4 0.07
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (43 bp):
TTAAAGATTATGTTTTTAGCGGCAGTTTGAGGAGAAAGTGCCA
Found at i:49921539 original size:14 final size:14
Alignment explanation
Indices: 49921520--49921559 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
49921510 TCAGATATAT
49921520 TTTATTATAATTTA
1 TTTATTATAATTTA
*
49921534 TTTATTAT-ATCATA
1 TTTATTATAAT-TTA
49921548 TTTATTATAATT
1 TTTATTATAATT
49921560 GGAGACTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTATAATTTA
Found at i:49922096 original size:11 final size:11
Alignment explanation
Indices: 49922075--49922106 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
49922065 TAAAAGATAT
49922075 TCATAATGGATC
1 TCAT-ATGGATC
49922087 TCATATGGATC
1 TCATATGGATC
49922098 TCATATGGA
1 TCATATGGA
49922107 GATTGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (11 bp):
TCATATGGATC
Found at i:49928543 original size:15 final size:15
Alignment explanation
Indices: 49928523--49928561 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
49928513 TCTCCTTTTC
49928523 CTTTTCTTTTTCAAA
1 CTTTTCTTTTTCAAA
*
49928538 CTTTTCTATTTCAAA
1 CTTTTCTTTTTCAAA
49928553 CTTTTCTTT
1 CTTTTCTTT
49928562 AAATCAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTTTCTTTTTCAAA
Found at i:49932522 original size:27 final size:28
Alignment explanation
Indices: 49932438--49932535 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
49932428 CATGAGATTG
* * * *
49932438 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
49932467 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
49932495 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49932522 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
49932536 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49932546 original size:27 final size:27
Alignment explanation
Indices: 49932466--49932548 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
49932456 TAAATTGTAC
* *
49932466 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49932494 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49932521 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49932548 A
1 A
49932549 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49932549 original size:29 final size:27
Alignment explanation
Indices: 49932438--49932549 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
49932428 CATGAGATTG
** * *
49932438 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
49932467 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
49932495 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
49932522 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
49932550 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:49940829 original size:27 final size:28
Alignment explanation
Indices: 49940745--49940842 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
49940735 CATGAGATTG
* * * *
49940745 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
49940774 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
49940802 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49940829 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
49940843 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49940853 original size:27 final size:27
Alignment explanation
Indices: 49940773--49940855 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
49940763 TAAATTGTAC
* *
49940773 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49940801 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49940828 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49940855 A
1 A
49940856 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49940856 original size:29 final size:27
Alignment explanation
Indices: 49940745--49940856 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
49940735 CATGAGATTG
** * *
49940745 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
49940774 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
49940802 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
49940829 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
49940857 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:49952509 original size:46 final size:45
Alignment explanation
Indices: 49952457--49952629 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
49952447 TGGTTGAGCA
*
49952457 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
* * * *
49952503 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A--CG
*
49952550 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * *
49952596 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49952630 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:49952613 original size:93 final size:93
Alignment explanation
Indices: 49952454--49952624 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49952444 GGATGGTTGA
* **
49952454 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49952519 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
49952547 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATG-AGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA-AACGCCCGAACTCGTTGAG
*
49952611 TTGAGTCCTAGTTC
65 TTGAGTCCGAGTTC
49952625 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49952891 original size:19 final size:20
Alignment explanation
Indices: 49952854--49952891 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49952844 ATAAGCTGGT
49952854 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49952874 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49952892 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49956310 original size:39 final size:40
Alignment explanation
Indices: 49956265--49956436 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
49956255 GCTCCTCGTT
* * *
49956265 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
49956305 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
49956344 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
49956384 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTTGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
49956424 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
49956437 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:49958358 original size:40 final size:40
Alignment explanation
Indices: 49958280--49958537 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
49958270 CAACCAAGTA
* * *
49958280 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
49958319 CCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49958359 CCTTCGGGACTTAGCCCGAATATAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-GCACAAATG
*
49958399 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49958439 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
49958479 CCTTCGGGGCTTAGCCTGGA-ATTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
49958519 CCGTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49958538 TTATCATCCG
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.08
40 180 0.92
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49966565 original size:93 final size:93
Alignment explanation
Indices: 49966406--49966576 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
49966396 GGATGGTTGA
* * *
49966406 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCCAAACTCCTTGAGT
49966471 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
49966499 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG-CCTGAGCTCCTTGAG
1 GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCC-AAACTCCTTGAG
49966563 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
49966577 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCCAAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49969067 original size:43 final size:43
Alignment explanation
Indices: 49969016--49969346 Score: 455
Period size: 43 Copynumber: 7.7 Consensus size: 43
49969006 TATGTGTGTG
*
49969016 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
49969059 CATGTAAGACTACATCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
49969102 CGTGAAAGACCACATCTGGGATGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
** * * * *
49969145 AATGTAAGGCCACGTCTGGAACATTGGCATCGATATGTTATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * * *
49969188 CGTGTAAGACCACCTCTGAGACGTTGGCATTGATGTGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
*
49969231 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGCGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
*
49969274 CGTGTAAGACCAAGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
** * *
49969317 AATGTAAGACCACGTATGGGGCGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
49969347 TGTACGATAT
Statistics
Matches: 249, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 249 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:49981713 original size:13 final size:14
Alignment explanation
Indices: 49981695--49981725 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
49981685 TGTATGCTAA
49981695 TTACTTGGTAAGT-
1 TTACTTGGTAAGTC
49981708 TTACTTGGTAAGTC
1 TTACTTGGTAAGTC
49981722 TTAC
1 TTAC
49981726 AGTGCTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (14 bp):
TTACTTGGTAAGTC
Done.