Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 206 of 322
Found at i:67641393 original size:24 final size:24
Alignment explanation
Indices: 67641361--67641408 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
67641351 GATTACGTGT
67641361 AAGACCATGTCTAGGACATTGGCA
1 AAGACCATGTCTAGGACATTGGCA
67641385 AAGACCATGTCTAGGACATTGGCA
1 AAGACCATGTCTAGGACATTGGCA
67641409 TTGTTAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
AAGACCATGTCTAGGACATTGGCA
Found at i:67641428 original size:67 final size:67
Alignment explanation
Indices: 67641317--67641451 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 67
67641307 TGATTACCTA
* * * *
67641317 AAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGTCTAGGACATTG
1 AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTACGTGTAAGACCATGTCTAGGACAGTG
67641382 GC
66 GC
** * *
67641384 AAAGACCATGTCTAGGACATTGGCATTGTTAAT-CGATTTTGTGTAAGACCCTGTCTGGGACAGT
1 AAAGACCATGTCTAGGACATTGGCATTG-TAATGCGATTACGTGTAAGACCATGTCTAGGACAGT
67641448 GGC
65 GGC
67641451 A
1 A
67641452 TCGATATGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
67 56 0.95
68 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (67 bp):
AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTACGTGTAAGACCATGTCTAGGACAGTG
GC
Found at i:67649340 original size:48 final size:46
Alignment explanation
Indices: 67649228--67649348 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
67649218 TGATATGTGT
* *
67649228 GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCCACATTACGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
* *
67649274 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAC-A-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-C-ACAT-TACGAGA
*
67649322 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
67649349 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 30 0.46
47 1 0.02
48 27 0.42
49 4 0.06
50 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
Found at i:67649429 original size:49 final size:49
Alignment explanation
Indices: 67649371--67649498 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
67649361 TGTGTGTCAA
* * * * *
67649371 TGTAAGACCTATCTAGGACATAGCATCGACAC-CGATAGATGAGAG-CTAG
1 TGTAAGACCTGTATGGGACATGGCATCGAC-CTCGATAGATGAAAGTCT-G
* *
67649420 TGTAAGACCTGTATGGGACATGGCATCGGCCTCGATATATGAAAGTCTG
1 TGTAAGACCTGTATGGGACATGGCATCGACCTCGATAGATGAAAGTCTG
*
67649469 TGTAAGACCTGTTTGGGACATGGCATCGAC
1 TGTAAGACCTGTATGGGACATGGCATCGAC
67649499 TTTGATGTGC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.96
50 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTATGGGACATGGCATCGACCTCGATAGATGAAAGTCTG
Found at i:67652756 original size:6 final size:6
Alignment explanation
Indices: 67652738--67652826 Score: 67
Period size: 6 Copynumber: 14.5 Consensus size: 6
67652728 AAGAAACATT
* * *
67652738 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
67652787 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATC
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC
67652827 GGTATCAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:67652783 original size:31 final size:31
Alignment explanation
Indices: 67652747--67652840 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
67652737 TATCAGAACT
* * *
67652747 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
67652778 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
67652809 AGAATCAAAATCAGAATCGGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
67652840 A
1 A
67652841 AAATAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:67652811 original size:25 final size:24
Alignment explanation
Indices: 67652783--67652830 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
67652773 GTGACAGAAT
* *
67652783 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATC-GGTAA
67652808 CAGAATCAAAATCAGAATCGGTA
1 CAGAATCAAAATCAGAATCGGTA
67652831 TCAGGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (24 bp):
CAGAATCAAAATCAGAATCGGTAA
Found at i:67653036 original size:27 final size:26
Alignment explanation
Indices: 67652994--67653095 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
67652984 GCTCAGTTAT
* *
67652994 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
67653021 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
67653047 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
67653075 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
67653096 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:67653279 original size:22 final size:22
Alignment explanation
Indices: 67653254--67653318 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
67653244 GCAAATACGT
* *
67653254 TTGGCATACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
67653276 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
67653298 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
67653319 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:67653795 original size:27 final size:27
Alignment explanation
Indices: 67653738--67654094 Score: 493
Period size: 27 Copynumber: 13.3 Consensus size: 27
67653728 GGGGCAAAAT
* * * *
67653738 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67653764 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67653791 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67653818 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67653845 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
67653872 GATAATTCTACACTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67653899 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67653926 GGTAATTTTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67653953 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
67653980 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67654006 TGATAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
67654034 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67654061 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
67654088 GGTAATT
1 GGTAATT
67654095 TTGTAAATCG
Statistics
Matches: 297, Mismatches: 31, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 17 0.06
27 277 0.93
28 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:67695387 original size:28 final size:28
Alignment explanation
Indices: 67695342--67695406 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
67695332 GTTAGCCGAA
*
67695342 TTAATGTGT-CATGTTTTATGACAATAT
1 TTAATTTGTCCATGTTTTATGACAATAT
67695369 TTAATTTGTCCATGTTTTATGACAATAT
1 TTAATTTGTCCATGTTTTATGACAATAT
67695397 TTAATTTGTC
1 TTAATTTGTC
67695407 TTAGCTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (28 bp):
TTAATTTGTCCATGTTTTATGACAATAT
Found at i:67700792 original size:22 final size:22
Alignment explanation
Indices: 67700767--67700809 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
67700757 AAGCCACCAC
* *
67700767 TGATTTACAGATATGCTGCCAT
1 TGATTTACAAATATACTGCCAT
*
67700789 TGATTTGCAAATATACTGCCA
1 TGATTTACAAATATACTGCCA
67700810 CTACTTCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (22 bp):
TGATTTACAAATATACTGCCAT
Found at i:67702378 original size:21 final size:21
Alignment explanation
Indices: 67702353--67702393 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
67702343 ATTATCTAGT
67702353 CATTAAA-ACTATGTTTTTAGC
1 CATTAAACAC-ATGTTTTTAGC
67702374 CATTAAATCACATGTTTTTA
1 CATTAAA-CACATGTTTTTA
67702394 ATAAAAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (21 bp):
CATTAAACACATGTTTTTAGC
Found at i:67715246 original size:46 final size:47
Alignment explanation
Indices: 67715140--67715261 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
67715130 TGTCTTCGAC
* * * *
67715140 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGACTCATTTCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
67715190 ATGGGCTTACATGACTCATTTCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGACTCATTTCTGTCTCCAAAGCCAATATATCTAAT
*
67715236 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGACTCATTTCTGTC
67715262 CTGTCCTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGACTCATTTCTGTCTCCAAAGCCAATATATCTAAT
Found at i:67717051 original size:33 final size:33
Alignment explanation
Indices: 67717009--67717074 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
67716999 CACCCTTTTA
*
67717009 AAACCTTATTTTGATGAGATTGATAGCAGGAAT
1 AAACCTTATTTTGATAAGATTGATAGCAGGAAT
67717042 AAACCTTATTTTGATAAGATTGATAGCAGGAAT
1 AAACCTTATTTTGATAAGATTGATAGCAGGAAT
67717075 GAGGAGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (33 bp):
AAACCTTATTTTGATAAGATTGATAGCAGGAAT
Found at i:67722382 original size:31 final size:32
Alignment explanation
Indices: 67722325--67722386 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
67722315 ACGAAGTCAC
* *
67722325 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
67722357 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
67722387 TTACAGCGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:67723080 original size:26 final size:27
Alignment explanation
Indices: 67723051--67723104 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
67723041 TCACACAAGT
*
67723051 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
67723077 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
67723104 T
1 T
67723105 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:67723136 original size:27 final size:27
Alignment explanation
Indices: 67723106--67723300 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
67723096 GGGCAAAATG
* * * *
67723106 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
67723133 GTAATTTTACCTTACAGGTGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
67723160 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
67723187 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
67723214 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
67723241 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
67723268 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
67723295 GTAATT
1 GTAATT
67723301 TTACAACTTA
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:67726767 original size:21 final size:21
Alignment explanation
Indices: 67726727--67726767 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
67726717 ATGATTCAAC
*
67726727 AATGATTCGACAGTGTTTTGA
1 AATGATTCGACAGTGATTTGA
67726748 AATGATTCGACTA-TGATTTG
1 AATGATTCGAC-AGTGATTTG
67726768 GTATTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (21 bp):
AATGATTCGACAGTGATTTGA
Found at i:67726934 original size:47 final size:47
Alignment explanation
Indices: 67726880--67727102 Score: 392
Period size: 47 Copynumber: 4.7 Consensus size: 47
67726870 TGTGACTTAA
67726880 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
* * *
67726927 ACCTTGATTTGGCTACGAGCCATTGTATAGGTACTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
67726974 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
* * *
67727021 ACCTTGATTTGGCTACGAGCCATTGTATAGGTACTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
67727068 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
67727103 TATCCATTGA
Statistics
Matches: 165, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 165 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (47 bp):
ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
Found at i:67727041 original size:94 final size:94
Alignment explanation
Indices: 67726880--67727102 Score: 446
Period size: 94 Copynumber: 2.4 Consensus size: 94
67726870 TGTGACTTAA
67726880 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTTACCTTGATTTGGCTACGA
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTTACCTTGATTTGGCTACGA
67726945 GCCATTGTATAGGTACTCCAGGATAAGTT
66 GCCATTGTATAGGTACTCCAGGATAAGTT
67726974 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTTACCTTGATTTGGCTACGA
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTTACCTTGATTTGGCTACGA
67727039 GCCATTGTATAGGTACTCCAGGATAAGTT
66 GCCATTGTATAGGTACTCCAGGATAAGTT
67727068 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
67727103 TATCCATTGA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 129 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (94 bp):
ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTTACCTTGATTTGGCTACGA
GCCATTGTATAGGTACTCCAGGATAAGTT
Found at i:67741219 original size:31 final size:31
Alignment explanation
Indices: 67741176--67741237 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
67741166 GGATCTCTGG
67741176 ACCACTTTCTCAGGGACTGCCCAGAGCGAGT
1 ACCACTTTCTCAGGGACTGCCCAGAGCGAGT
* *
67741207 ACCAGTTTCTCAGGGACTGCTCAGAGCGAGT
1 ACCACTTTCTCAGGGACTGCCCAGAGCGAGT
67741238 CGAGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (31 bp):
ACCACTTTCTCAGGGACTGCCCAGAGCGAGT
Found at i:67760626 original size:27 final size:27
Alignment explanation
Indices: 67760596--67760773 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67760586 ATATTGAGTC
* * * *
67760596 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
67760623 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67760650 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
67760678 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
67760705 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
67760732 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67760759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67760774 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:67760735 original size:82 final size:81
Alignment explanation
Indices: 67760617--67760772 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67760607 TGCTATATAA
* *
67760617 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
67760682 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67760699 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
67760763 CACTTAGTGC
65 CACTTAGTGC
67760773 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:67763084 original size:34 final size:34
Alignment explanation
Indices: 67763038--67763105 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
67763028 CTGAATGGGT
*
67763038 CCAAACCGAGCCAGAAATGTGTAAACATTTTGAG
1 CCAAACCAAGCCAGAAATGTGTAAACATTTTGAG
67763072 CCAAACCAAGCCAGAAATGTGTAAACATTTTGAG
1 CCAAACCAAGCCAGAAATGTGTAAACATTTTGAG
67763106 GAAGGTGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (34 bp):
CCAAACCAAGCCAGAAATGTGTAAACATTTTGAG
Found at i:67764070 original size:58 final size:58
Alignment explanation
Indices: 67763980--67764095 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
67763970 GTAATACTTG
*
67763980 GTATGGATTGGTTAGCACTGCATGATATAATTGTAAATTGTGGTAGTAAGTATATTAA
1 GTATGGATTGGTTAGCACTGCATAATATAATTGTAAATTGTGGTAGTAAGTATATTAA
*
67764038 GTATGGATTGGTTAGCACTGCATAATGTAATTGTAAATTGTGGTAGTAAGTATATTAA
1 GTATGGATTGGTTAGCACTGCATAATATAATTGTAAATTGTGGTAGTAAGTATATTAA
67764096 ATTGAAATGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (58 bp):
GTATGGATTGGTTAGCACTGCATAATATAATTGTAAATTGTGGTAGTAAGTATATTAA
Found at i:67765125 original size:74 final size:74
Alignment explanation
Indices: 67765004--67765147 Score: 261
Period size: 74 Copynumber: 1.9 Consensus size: 74
67764994 GAGTCGATCC
*
67765004 AAGTAAGATTTCTGCTATCATCGAATGGAAACCACCTAAGAATGCAACTGAGGTTAGAAGCTTTT
1 AAGTAAGATTTCTGCTACCATCGAATGGAAACCACCTAAGAATGCAACTGAGGTTAGAAGCTTTT
67765069 TGGGCTTCT
66 TGGGCTTCT
* *
67765078 AAGTAAGATTTCTGCTACCGTCGAATGGAAACCACCTAATAATGCAACTGAGGTTAGAAGCTTTT
1 AAGTAAGATTTCTGCTACCATCGAATGGAAACCACCTAAGAATGCAACTGAGGTTAGAAGCTTTT
67765143 TGGGC
66 TGGGC
67765148 ATAGCTGATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (74 bp):
AAGTAAGATTTCTGCTACCATCGAATGGAAACCACCTAAGAATGCAACTGAGGTTAGAAGCTTTT
TGGGCTTCT
Found at i:67783618 original size:32 final size:32
Alignment explanation
Indices: 67783577--67783639 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
67783567 CAGTTTGAAG
*
67783577 TGACACCTTACGAGGCCTTATATGGTAGGAAC
1 TGACACCTTACGAGGCCTTATATAGTAGGAAC
*
67783609 TGACACCTTATGAGGCCTTATATAGTAGGAA
1 TGACACCTTACGAGGCCTTATATAGTAGGAA
67783640 GTGCTGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (32 bp):
TGACACCTTACGAGGCCTTATATAGTAGGAAC
Found at i:67785613 original size:33 final size:34
Alignment explanation
Indices: 67785570--67785635 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
67785560 AGAGTGCATG
* *
67785570 CAGTAACAGTCT-GGGCTTGAGCCCTATTCAGTAT
1 CAGTAACAGTCTAGGCCTT-AGCCCTATACAGTAT
67785604 CAGT-ACAGTCTAGGCCTTAGCCCTATACAGTA
1 CAGTAACAGTCTAGGCCTTAGCCCTATACAGTA
67785636 ATAGTGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (34 bp):
CAGTAACAGTCTAGGCCTTAGCCCTATACAGTAT
Found at i:67804043 original size:30 final size:30
Alignment explanation
Indices: 67804008--67804068 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
67803998 TCCTTAGCTC
*
67804008 AAACTTTTGCAAATTTACAATTTTGCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
* * *
67804038 AAACTTTTACATATTTACACTTTTTCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
67804068 A
1 A
67804069 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AAACTTTTACAAATTTACAATTTTGCCCCT
Found at i:67811789 original size:21 final size:21
Alignment explanation
Indices: 67811738--67811789 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
67811728 ACTTGTCGAC
* *
67811738 CATGATTCGAAAATGATTCGA
1 CATGATTTGAAAATGATTCAA
*
67811759 CAGTGTTTTG-AAATGATTCAA
1 CA-TGATTTGAAAATGATTCAA
67811780 CTATGATTTG
1 C-ATGATTTG
67811790 GTATTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (21 bp):
CATGATTTGAAAATGATTCAA
Found at i:67811957 original size:47 final size:47
Alignment explanation
Indices: 67811902--67812077 Score: 316
Period size: 47 Copynumber: 3.7 Consensus size: 47
67811892 TGTGAGTTAA
67811902 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGTT
* *
67811949 ACCTTGATTTGGCTACGGGCCATTGTATAGGTGCTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGTT
*
67811996 ACCTTGATTTGGCTACGGGCCATGGTACAGGTACTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGTT
*
67812043 ACCTTGATTTGGCTACGGGCCATGGCATAGGTACT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
67812078 TATCCATTGA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 122 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGTT
Found at i:67815223 original size:28 final size:28
Alignment explanation
Indices: 67815191--67815260 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
67815181 AATGAGATTG
*
67815191 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
**
67815219 GCACTAAGTGTGCGAGTTTGGTTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
67815247 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
67815261 GACTTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:67820525 original size:24 final size:24
Alignment explanation
Indices: 67820498--67820544 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
67820488 ATATGTTGAC
67820498 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
67820522 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
67820545 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:67820557 original size:24 final size:24
Alignment explanation
Indices: 67820508--67820570 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
67820498 ATTCAAATCA
* * *
67820508 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACAACACC
*
67820532 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACAACACC
67820556 GCACACATAGTGCCA
1 GCACACATAGTGCCA
67820571 ATGTACCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACAACACC
Found at i:67823587 original size:215 final size:215
Alignment explanation
Indices: 67823212--67823642 Score: 711
Period size: 215 Copynumber: 2.0 Consensus size: 215
67823202 GTGAATAATC
** * **
67823212 CGTACGTACGGGAATAAAATGAGTCGATTTAGTCAGTCTATCAACAACAACCCAAATCTTATCTT
1 CGTACGTACAAGAATAAAATGAGCCGATTTAGTCAGTCTATCAACAACAACCCAAATCGCATCTT
* * * *
67823277 TCTTACTTGCCGACAATGGCAACCCAGATACAAAATCCATCGTGACTCGATCCCATTTCCATTCA
66 TCTTACTTGACGACAATGGCAACCCAGATACAAAATCCATCGTAACTCGATCCCACTTCCACTCA
67823342 GGTATCATGATCGGCTGAAGTAAACCTGTAGGCACTTGATGTTCCGCTTTCACTTGTTGACATAT
131 GGTATCATGATCGGCTGAAGTAAACCTGTAGGCACTTGATGTTCCGCTTTCACTTGTTGACATAT
67823407 TAAACACTTCGAAACAAAAT
196 TAAACACTTCGAAACAAAAT
*
67823427 CGTACGTACAAGAATAAAATGAGCCGACTTT-GTCAGTCTATCAACAACAACCCAGATCGCATCT
1 CGTACGTACAAGAATAAAATGAGCCGA-TTTAGTCAGTCTATCAACAACAACCCAAATCGCATCT
* * *
67823491 TTCTTGCTTGATGACAATGGCAATCCAGATACAAAATCCATCGTAACTCGATCCCACTTCCACTC
65 TTCTTACTTGACGACAATGGCAACCCAGATACAAAATCCATCGTAACTCGATCCCACTTCCACTC
* *
67823556 GGGTATCATGATCGGCTGAAGTAATCCTGTAGGCACTTGATGTTCCGCTTTCACTTGTTGACATA
130 AGGTATCATGATCGGCTGAAGTAAACCTGTAGGCACTTGATGTTCCGCTTTCACTTGTTGACATA
67823621 TTAAACACTTCGAAACAAAAT
195 TTAAACACTTCGAAACAAAAT
67823642 C
1 C
67823643 AGAAATGTCT
Statistics
Matches: 200, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 197 0.99
216 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (215 bp):
CGTACGTACAAGAATAAAATGAGCCGATTTAGTCAGTCTATCAACAACAACCCAAATCGCATCTT
TCTTACTTGACGACAATGGCAACCCAGATACAAAATCCATCGTAACTCGATCCCACTTCCACTCA
GGTATCATGATCGGCTGAAGTAAACCTGTAGGCACTTGATGTTCCGCTTTCACTTGTTGACATAT
TAAACACTTCGAAACAAAAT
Found at i:67836380 original size:24 final size:24
Alignment explanation
Indices: 67836353--67836399 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
67836343 ATATGTTGAC
67836353 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
67836377 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
67836400 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:67836433 original size:24 final size:24
Alignment explanation
Indices: 67836363--67836425 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
67836353 ATTCAAATCA
* * * *
67836363 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
67836387 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
67836411 GCACACATAGTGCCA
1 GCACACATAGTGCCA
67836426 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:67849509 original size:46 final size:46
Alignment explanation
Indices: 67849459--67849618 Score: 164
Period size: 46 Copynumber: 3.5 Consensus size: 46
67849449 GAAGTCATTC
*
67849459 AGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAACTCGTTG
* * * * *
67849505 AGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGCATCTGAACTGGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCTGAACTCGTTG
* * * * *
67849552 AGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAACTCGTTG
67849598 AGTTGAGTCCGAGTTCACTTA
1 AGTTGAGTCCGAGTTCACTTA
67849619 GGGGCGGGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.07
44 3 0.03
45 1 0.01
46 45 0.50
47 27 0.30
48 1 0.01
49 2 0.02
50 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAACTCGTTG
Found at i:67852353 original size:27 final size:27
Alignment explanation
Indices: 67852311--67852363 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
67852301 AGTGAAGAGT
67852311 GGTGCATGTTTCAGATGTGGATCTCTC
1 GGTGCATGTTTCAGATGTGGATCTCTC
*
67852338 GGTGCATGTTTTAGATGTGGATCTCT
1 GGTGCATGTTTCAGATGTGGATCTCT
67852364 TGACCACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (27 bp):
GGTGCATGTTTCAGATGTGGATCTCTC
Found at i:67854449 original size:27 final size:27
Alignment explanation
Indices: 67854419--67854516 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
67854409 TTGTACAGCC
* *
67854419 CTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGCGAATTGACTATGATGCA
* * * *
67854446 CTAAGTGTTCTAAATGAATATGATGCA
1 CTAAGTGTGCGAATTGACTATGATGCA
* **
67854473 CTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGAATTGACTATGATGCA
*
67854500 CTAAGTGTGCGAGTTGA
1 CTAAGTGTGCGAATTGA
67854517 TTTTATAGCA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
CTAAGTGTGCGAATTGACTATGATGCA
Found at i:67870988 original size:31 final size:31
Alignment explanation
Indices: 67870912--67870988 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
67870902 ACGGCCAAAG
*
67870912 CACACTGGCGTGTCTTGTGTCACGGCCTAGA
1 CACACAGGCGTGTCTTGTGTCACGGCCTAGA
* * * *
67870943 CATACGGGCCTGTCTTGTGTCACGGCCTCGA
1 CACACAGGCGTGTCTTGTGTCACGGCCTAGA
67870974 CACACAGGCGTGTCT
1 CACACAGGCGTGTCT
67870989 AATGTCGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.25
Consensus pattern (31 bp):
CACACAGGCGTGTCTTGTGTCACGGCCTAGA
Found at i:67878911 original size:27 final size:27
Alignment explanation
Indices: 67878871--67879010 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
67878861 AGAATAGCTG
* *
67878871 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
* * *
67878897 CCAGATACAAATATTGTGGCACAACCA
1 CCAGATACAGATATTGTGGCAGAGCCA
*
67878924 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
67878952 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
*
67878979 CCAGAT-CAGATATTTGTAGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
67879006 CCAGA
1 CCAGA
67879011 ACGCTTCCTC
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.78
28 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:67886819 original size:27 final size:28
Alignment explanation
Indices: 67886717--67886826 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 28
67886707 TGGCTGCTAG
* * *
67886717 AACAGATA-TTGTGACAGAGTCACTAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
* *
67886744 TACAGA-AATTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
* * *
67886771 AACAGATATTTTTGGTAGAGCCACC-GG
1 AACAGATATTTGTGGCAGAGCCACCAGA
* * *
67886798 ATCAGATATTTGTGGCAAAGCCACTAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
67886826 A
1 A
67886827 CGCTTCCTCC
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 47 0.72
28 17 0.26
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGATATTTGTGGCAGAGCCACCAGA
Found at i:67891182 original size:7 final size:7
Alignment explanation
Indices: 67891170--67891199 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
67891160 TGCAAAAACG
67891170 ATCCAAA
1 ATCCAAA
67891177 ATCCAAA
1 ATCCAAA
67891184 ATCCAAA
1 ATCCAAA
*
67891191 GTCCAAA
1 ATCCAAA
67891198 AT
1 AT
67891200 AAAGTCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (7 bp):
ATCCAAA
Found at i:67891649 original size:50 final size:51
Alignment explanation
Indices: 67891553--67891679 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 51
67891543 ACACCAAAAA
* * *
67891553 TATGGACAAGCCACCAGAT-ATTGCAG-TCAAGCTACCAAAAATAGAATAT
1 TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
* * * *
67891602 TGTGGTCAAGCCACCAAATAATTGCAGATCAA-CTGCCATATACAGAATAT
1 TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
* *
67891652 TATGGTCAAGCCACCTAA-AATCGCAGAT
1 TATGGTCAAGCCACCAAATAATTGCAGAT
67891680 ATACTATCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 25 0.38
50 37 0.56
51 4 0.06
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (51 bp):
TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
Found at i:67894570 original size:30 final size:30
Alignment explanation
Indices: 67894536--67894595 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
67894526 CTTTAATACG
*
67894536 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
67894566 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
67894596 GGATTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:67896781 original size:21 final size:22
Alignment explanation
Indices: 67896757--67896805 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
67896747 ATACAGGGCC
*
67896757 CACACGCCTGTGTGGTC-AGGA
1 CACACGCCTGTGTGATCAAGGA
*
67896778 CACACGCTTGTGTGATCATAGGA
1 CACACGCCTGTGTGATCA-AGGA
67896801 CACAC
1 CACAC
67896806 CTGTGTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.62
23 9 0.38
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (22 bp):
CACACGCCTGTGTGATCAAGGA
Found at i:67896810 original size:21 final size:19
Alignment explanation
Indices: 67896758--67896811 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
67896748 TACAGGGCCC
* *
67896758 ACACGCCTGTGTGGTCAGG
1 ACACACCTGTGTGATCAGG
67896777 ACACACGCTTGTGTGATCATAGG
1 ACACAC-C-TGTGTGATC--AGG
67896800 ACACACCTGTGT
1 ACACACCTGTGT
67896812 AACAAACCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 1 0.03
21 13 0.45
22 1 0.03
23 9 0.31
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (19 bp):
ACACACCTGTGTGATCAGG
Found at i:67897234 original size:14 final size:14
Alignment explanation
Indices: 67897215--67897243 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
67897205 AATCTTACCT
67897215 TTGTTTAAGTTATA
1 TTGTTTAAGTTATA
67897229 TTGTTTAAGTTATA
1 TTGTTTAAGTTATA
67897243 T
1 T
67897244 GCTAAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTGTTTAAGTTATA
Found at i:67899103 original size:27 final size:27
Alignment explanation
Indices: 67899073--67899250 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
67899063 ATATTGAGTC
* *
67899073 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
67899100 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
67899127 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
67899155 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
67899182 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
67899209 AGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
67899236 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67899251 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:67901883 original size:80 final size:80
Alignment explanation
Indices: 67901726--67901948 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 80
67901716 AAATGTATAT
* * *
67901726 CACATAGGGACAAAACAGTTAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGGCT
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGGCA
*
67901791 AAACAGTTATTTTGC
66 AAACAGTCATTTTGC
* * * * * *
67901806 CACATAAGGTCAAAATAGTCAATTTACCATGTAAGGGCATTTCAGTCATTTTATCAAATA-GGCG
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGGC-
*
67901870 AAAATAGTCATTTTGC
65 AAAACAGTCATTTTGC
* * * * * *
67901886 CATATAAGGGCAAAACAGTCAATTTTCCATGTAGGGGTATTTTACTCATTTTACCAACTAGGG
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGG
67901949 GGTCTAGGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 3 0.03
80 115 0.96
81 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (80 bp):
CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGGCA
AAACAGTCATTTTGC
Found at i:67901906 original size:27 final size:27
Alignment explanation
Indices: 67901771--67901915 Score: 93
Period size: 27 Copynumber: 5.4 Consensus size: 27
67901761 GGCATTTCAA
*
67901771 TCATTTTACCA-ACT-AGGGCTAAACAG
1 TCATTTTACCATA-TAAGGGCAAAACAG
* * * * *
67901797 TTATTTTGCCACATAAGGTCAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
* * ***
67901824 TCAATTTACCATGTAAGGGCATTTCAG
1 TCATTTTACCATATAAGGGCAAAACAG
* * *
67901851 TCATTTTATCAAAT-A-GGCGAAAATAG
1 TCATTTTACCATATAAGGGC-AAAACAG
*
67901877 TCATTTTGCCATATAAGGGCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAG
67901904 TCAATTTT-CCAT
1 TC-ATTTTACCAT
67901916 GTAGGGGTAT
Statistics
Matches: 86, Mismatches: 27, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
25 3 0.03
26 25 0.29
27 50 0.58
28 8 0.09
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAACAG
Found at i:67904239 original size:41 final size:40
Alignment explanation
Indices: 67904112--67904256 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
67904102 CTCGTACAAG
* * * *
67904112 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
67904152 GCCTTCGGGACTTATCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
67904192 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
67904233 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
67904257 CATTCGAATA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.63
41 28 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:67908388 original size:20 final size:20
Alignment explanation
Indices: 67908359--67908396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67908349 GATCCAAAAA
*
67908359 TTATATATATACAAAACAAT
1 TTATACATATACAAAACAAT
*
67908379 TTATACATATACAGAACA
1 TTATACATATACAAAACA
67908397 TATAACACAT
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:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
TTATACATATACAAAACAAT
Found at i:67911038 original size:52 final size:52
Alignment explanation
Indices: 67910964--67911069 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
67910954 GGTCGAACCC
*
67910964 TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTGGGTCAAGAAGAAAGAT
1 TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
67911016 TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
1 TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
67911068 TA
1 TA
67911070 TGAACATGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (52 bp):
TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
Found at i:67911632 original size:18 final size:18
Alignment explanation
Indices: 67911609--67911658 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
67911599 CCCATTACAG
*
67911609 TAACAGCAAACAGTGCAA
1 TAACAGTAAACAGTGCAA
* * *
67911627 TAACAGTAAATAATGCAG
1 TAACAGTAAACAGTGCAA
67911645 TAACAGTAAACAGT
1 TAACAGTAAACAGT
67911659 ATGCAAGTCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAA
Found at i:67912174 original size:79 final size:80
Alignment explanation
Indices: 67912001--67912199 Score: 303
Period size: 79 Copynumber: 2.5 Consensus size: 80
67911991 CAAAATAGTT
* * *
67912001 AATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAAAACAGTTATTTTGCCACAT
1 AATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAAAACAATCATTTTGCAACAT
67912066 ACAGGAAAAACAATC
66 ACAGGAAAAACAATC
* *
67912081 AATTTACAATGTAGGGGCATTTCAGTCATTTTACCAACTAGGG-AAAATAATCATTTTGCAACAT
1 AATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAAAACAATCATTTTGCAACAT
*
67912145 A-AGGGCAAAACAATC
66 ACA-GGAAAAACAATC
* *
67912160 AATTTACCATGTAGGGGTATTTCAGTCATTTAACCAACTA
1 AATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTA
67912200 AGGGGTCTAG
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
78 1 0.01
79 66 0.61
80 42 0.39
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (80 bp):
AATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAAAACAATCATTTTGCAACAT
ACAGGAAAAACAATC
Found at i:67915940 original size:34 final size:32
Alignment explanation
Indices: 67915897--67915962 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
67915887 TGGGTTTTCT
67915897 TTCCCAATAAGATGTTGGACAAATTTGATGGG
1 TTCCCAATAAGATGTTGGACAAATTTGATGGG
* *
67915929 NTTCCCTAATAAGATGTTGGACAGATTTTATGGG
1 -TTCCC-AATAAGATGTTGGACAAATTTGATGGG
67915963 AAAGAATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.33
Consensus pattern (32 bp):
TTCCCAATAAGATGTTGGACAAATTTGATGGG
Found at i:67925603 original size:50 final size:50
Alignment explanation
Indices: 67925540--67925833 Score: 306
Period size: 50 Copynumber: 5.8 Consensus size: 50
67925530 ACTGAAGCTC
* *
67925540 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
*
67925590 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** * * * * *
67925640 TCAT-ATACATGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGCTA
1 TC-TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* * * *
67925691 TC-GGATACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCGAACAA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
67925741 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGGCCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** * *
67925790 CCATTTTAAACACATAGTAGCCTGCACATAGTACTACATATGTG
1 TC-TGGT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
67925834 TTCTCACAAT
Statistics
Matches: 201, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.01
50 126 0.63
51 41 0.20
52 31 0.15
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:67925725 original size:101 final size:100
Alignment explanation
Indices: 67925551--67925781 Score: 304
Period size: 101 Copynumber: 2.3 Consensus size: 100
67925541 CTGGTACGCA
* * * *
67925551 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCTGGTACACATAGTAGCCAGCACTT
* * * *
67925616 AGTACTACACATGTGACCTAACCATCAT-ATACATG
66 AGTACTACACATGCGACCGAACAATC-TGATACACG
* * * *
67925651 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGCTATC-GGATACGCATAGTAGCCAGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAATCTGG-TACACATAGTAGCCAGCAC
*
67925715 TTAGTACTACACATGCGACCGAACAATCTGGTACACG
64 TTAGTACTACACATGCGACCGAACAATCTGATACACG
67925752 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
67925782 GCCTAAAACC
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
100 34 0.30
101 80 0.70
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCTGGTACACATAGTAGCCAGCACTT
AGTACTACACATGCGACCGAACAATCTGATACACG
Found at i:67928335 original size:24 final size:23
Alignment explanation
Indices: 67928245--67928369 Score: 173
Period size: 22 Copynumber: 5.4 Consensus size: 23
67928235 TAGCTCGTAT
*
67928245 GAGCTTACTGTTTCAGCTCATTA
1 GAGCTTACTGTTTCAGCTCAATA
67928268 GAGCTTACTGTTT-AGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
67928290 GAGCTTACTCTTT-AGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
67928312 GAGCTTACTGTTTTCAGCTTAATA
1 GAGCTTACTG-TTTCAGCTCAATA
*
67928336 GAGCTTACTGTTATCAGCTCAAAAA
1 GAGCTTACTGTT-TCAGCTC-AATA
67928361 GAGCTTACT
1 GAGCTTACT
67928370 TGCCATATCT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
22 38 0.41
23 18 0.20
24 24 0.26
25 12 0.13
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:67929720 original size:14 final size:16
Alignment explanation
Indices: 67929701--67929738 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
67929691 AGAAAATGAA
*
67929701 GATATATGACA-A-GT
1 GATATATGAAATATGT
67929715 GATATATGAAATATGT
1 GATATATGAAATATGT
67929731 GATATATG
1 GATATATG
67929739 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (16 bp):
GATATATGAAATATGT
Found at i:67930220 original size:49 final size:50
Alignment explanation
Indices: 67930045--67930236 Score: 208
Period size: 50 Copynumber: 3.8 Consensus size: 50
67930035 TGTGAGGTTG
* * * * *
67930045 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAGTATGGTCA
* * ** *
67930096 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA-GGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT-ATGGTCA
* * * **
67930146 CATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGT-TGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTATGGTCA
*
67930195 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAG
67930237 CTTCGGCTAC
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 41 0.35
50 44 0.37
51 33 0.28
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTATGGTCA
Found at i:67933246 original size:15 final size:15
Alignment explanation
Indices: 67933226--67933281 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
67933216 GTATCTTGGG
67933226 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
67933241 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
67933256 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
67933271 TTTCTTTATTC
1 TTTCTTTATTC
67933282 AGTTTTCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:67935237 original size:44 final size:44
Alignment explanation
Indices: 67935174--67935262 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
67935164 TTATTATACT
67935174 ATGAATGGACAATTGGTACTATGGATAGTGAGATCGACACTTCG
1 ATGAATGGACAATTGGTACTATGGATAGTGAGATCGACACTTCG
67935218 ATGAATGGACAATTGGTACTATGGATAGTGAGATCGACACTTCG
1 ATGAATGGACAATTGGTACTATGGATAGTGAGATCGACACTTCG
67935262 A
1 A
67935263 GTAAATTCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (44 bp):
ATGAATGGACAATTGGTACTATGGATAGTGAGATCGACACTTCG
Found at i:67935597 original size:50 final size:49
Alignment explanation
Indices: 67935473--67935659 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
67935463 TGAGGTCGCA
* * * * *
67935473 TGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
67935524 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
67935574 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
*
67935623 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
67935660 TAGCTTCGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 42 0.36
51 30 0.26
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:67939616 original size:34 final size:32
Alignment explanation
Indices: 67939578--67939650 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
67939568 TTATACCATG
* *
67939578 ATTAAACATTAATTAATA-TTATTTAATTAACTTA
1 ATTAAACATTAATT-ATACTAATTTAACT-A-TTA
**
67939612 ATTAAAGTTTAATTATACTAATTTAACTATTA
1 ATTAAACATTAATTATACTAATTTAACTATTA
67939644 ATTAAAC
1 ATTAAAC
67939651 TAAGTTGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 9 0.27
33 4 0.12
34 20 0.61
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTAAACATTAATTATACTAATTTAACTATTA
Found at i:67939624 original size:20 final size:19
Alignment explanation
Indices: 67939599--67939653 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
67939589 ATTAATATTA
*
67939599 TTTAATTAACTTAATTAAAG
1 TTTAATTAAC-TAATTAAAC
*
67939619 TTTAATTATACTAATTTAAC
1 TTTAATTA-ACTAATTAAAC
67939639 TATTAATTAAACTAA
1 T-TTAATT-AACTAA
67939654 GTTGGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 13 0.43
22 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTAATTAACTAATTAAAC
Found at i:67940308 original size:13 final size:13
Alignment explanation
Indices: 67940292--67940316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67940282 AAACAGTAGG
67940292 CAATCAATCTAAA
1 CAATCAATCTAAA
67940305 CAATCAATCTAA
1 CAATCAATCTAA
67940317 CTCTTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATCAATCTAAA
Found at i:67941934 original size:54 final size:54
Alignment explanation
Indices: 67941855--67941959 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
67941845 ATTACAAGTG
67941855 GGTTCGCCAGTCTGTTTGATGAACTGATGTTCACCAAG-CAAGTTGCAAACTAGT
1 GGTTCGCCAGTCTGTTTGATGAACTGATGTTCACC-AGTCAAGTTGCAAACTAGT
* * * * * * *
67941909 GGTTTGCCAGTTTTTTTGGTGAACTGGTGTTCGCCAGTTAAGTTGCAAACT
1 GGTTCGCCAGTCTGTTTGATGAACTGATGTTCACCAGTCAAGTTGCAAACT
67941960 GGGAGTTCGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (54 bp):
GGTTCGCCAGTCTGTTTGATGAACTGATGTTCACCAGTCAAGTTGCAAACTAGT
Found at i:67945281 original size:22 final size:22
Alignment explanation
Indices: 67945251--67945292 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
67945241 TCCTTTTTAT
*
67945251 TTCGTAAGTAACCGAGGCTTCA
1 TTCGCAAGTAACCGAGGCTTCA
67945273 TTCGCAAGTAACCGAGGCTT
1 TTCGCAAGTAACCGAGGCTT
67945293 GAGCAGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
TTCGCAAGTAACCGAGGCTTCA
Found at i:67946632 original size:47 final size:47
Alignment explanation
Indices: 67946554--67946868 Score: 477
Period size: 47 Copynumber: 6.6 Consensus size: 47
67946544 CCCTTCGGGA
* * * * * *
67946554 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67946601 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67946648 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
67946697 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67946744 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67946793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67946840 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
67946869 TATTCAAATA
Statistics
Matches: 246, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
47 136 0.55
49 110 0.45
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67946716 original size:96 final size:96
Alignment explanation
Indices: 67946554--67946868 Score: 526
Period size: 96 Copynumber: 3.3 Consensus size: 96
67946544 CCCTTCGGGA
* * * ** * * *
67946554 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
67946617 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
67946648 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
67946713 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
67946744 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
67946809 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
67946840 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
67946869 TATTCAAATA
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 196 0.95
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67947891 original size:28 final size:28
Alignment explanation
Indices: 67947840--67947895 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
67947830 ATTATCACGA
* *
67947840 ATCGACTATTCAGCTATTTCCTCTTTCC
1 ATCGACTATTAAGCTAATTCCTCTTTCC
67947868 ATCGACTATTAAGCTACATT-CTCTTTCC
1 ATCGACTATTAAGCTA-ATTCCTCTTTCC
67947896 CTTATCCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.41
Consensus pattern (28 bp):
ATCGACTATTAAGCTAATTCCTCTTTCC
Found at i:67951295 original size:26 final size:27
Alignment explanation
Indices: 67951266--67951327 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
67951256 TTTACTAAAC
*
67951266 TACCCCTAAGTATG-AAATTACCATTA
1 TACCCCTAAGTATGAAAATGACCATTA
67951292 TACCCCTAAGTATGCAAAATGACCATTA
1 TACCCCTAAGTATG-AAAATGACCATTA
67951320 TACCCCTA
1 TACCCCTA
67951328 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 14 0.42
28 19 0.58
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
TACCCCTAAGTATGAAAATGACCATTA
Found at i:67951502 original size:27 final size:26
Alignment explanation
Indices: 67951431--67951543 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
67951421 TGGAGGAAGC
67951431 GTTCTGGTGGCTATGCCACAATTATCT
1 GTTCTGGTGGCTATGCCACAA-TATCT
67951458 GTTTCTGGTGGCTATGCCACAGATATCT
1 G-TTCTGGTGGCTATGCCACA-ATATCT
* * *
67951486 GTTCTGGTGGCTCTGCCACAGTATTT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
67951512 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
67951539 GTTCT
1 GTTCT
67951544 AGCAGCCATG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.12
27 41 0.54
28 25 0.33
29 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:67952416 original size:31 final size:31
Alignment explanation
Indices: 67952378--67952441 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
67952368 CCTTTTCATA
67952378 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
67952409 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
67952440 TT
1 TT
67952442 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:67952699 original size:24 final size:24
Alignment explanation
Indices: 67952635--67952751 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
67952625 GCTTAATCAT
*
67952635 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
67952660 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
67952683 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
67952706 ATAACTGGGGCATAAGGCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
67952729 ATAAGTGGGACATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
67952752 TCACTTCCTC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 60 0.71
24 16 0.19
25 8 0.10
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:67952826 original size:20 final size:20
Alignment explanation
Indices: 67952801--67952847 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
67952791 TTACGAATAC
67952801 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67952821 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67952841 ACCATGT
1 ATCATGT
67952848 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67952916 original size:25 final size:25
Alignment explanation
Indices: 67952884--67952931 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
67952874 ATATATAAAC
* *
67952884 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
67952909 CCTAGGGGTAAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
67952932 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:67967388 original size:24 final size:24
Alignment explanation
Indices: 67967358--67967408 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
67967348 TGTTGTATGT
*
67967358 GAGTATCAAAATGTGTTCTCGGAA
1 GAGTATCAAAATGTGTTCTAGGAA
67967382 GAGTATCAAAATGTGTTCTAGGAA
1 GAGTATCAAAATGTGTTCTAGGAA
67967406 GAG
1 GAG
67967409 CTACCAGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.27
Consensus pattern (24 bp):
GAGTATCAAAATGTGTTCTAGGAA
Found at i:67967970 original size:26 final size:26
Alignment explanation
Indices: 67967941--67967996 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
67967931 TGATAAAAAT
67967941 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67967967 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67967993 TGAT
1 TGAT
67967997 GGACATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67968758 original size:54 final size:54
Alignment explanation
Indices: 67968667--67968864 Score: 335
Period size: 54 Copynumber: 3.7 Consensus size: 54
67968657 TGGAGGAAGC
67968667 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
67968721 GTCCTGGTGGCTATGCCACAATTATCTAATCTAGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
67968775 GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
67968829 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
67968865 ACTTCCTCAC
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
53 6 0.04
54 129 0.96
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:67968860 original size:32 final size:27
Alignment explanation
Indices: 67968670--67968864 Score: 233
Period size: 27 Copynumber: 7.2 Consensus size: 27
67968660 AGGAAGCGTC
*
67968670 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
67968697 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
67968723 CCTGGTGGCTATGCCACA-ATTATCTAAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
67968751 CTAGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
67968777 CCTGGTGGCTAC-GCCACA-ATTATCTGAT
1 -CTGGTGGCT-CTGCCACATA-TATCTGAT
*
67968805 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
67968832 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
67968859 CTGGTG
1 CTGGTG
67968865 ACTTCCTCAC
Statistics
Matches: 147, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.08
27 129 0.88
28 6 0.04
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:67969200 original size:16 final size:16
Alignment explanation
Indices: 67969179--67969211 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67969169 CGTAGGTAAT
67969179 CCCCAACCATAGTGGG
1 CCCCAACCATAGTGGG
67969195 CCCCAACCATAGTGGG
1 CCCCAACCATAGTGGG
67969211 C
1 C
67969212 TTGGAGCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (16 bp):
CCCCAACCATAGTGGG
Found at i:67972816 original size:29 final size:29
Alignment explanation
Indices: 67972784--67972846 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 29
67972774 ATATCAAAAT
*
67972784 ACTAAAAAAATTAAAATAAATATTTTCCA
1 ACTAAAAAAATCAAAATAAATATTTTCCA
67972813 ACT-AAAAAATCAAAATAAATATTTTCCA
1 ACTAAAAAAATCAAAATAAATATTTTCCA
67972841 AC-AAAA
1 ACTAAAA
67972847 TGAAACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (29 bp):
ACTAAAAAAATCAAAATAAATATTTTCCA
Found at i:67972944 original size:30 final size:30
Alignment explanation
Indices: 67972910--67972969 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
67972900 ACTTAACAAG
67972910 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
67972940 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
67972970 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:67976481 original size:23 final size:23
Alignment explanation
Indices: 67976451--67976709 Score: 233
Period size: 23 Copynumber: 11.3 Consensus size: 23
67976441 TGGCTGCTGA
*
67976451 TGTTTAAATGTTGCAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
67976474 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
67976497 TATTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
* ** *
67976520 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
** * *
67976543 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGTTGTAAATTGAAG
* *
67976565 ATGTTTTATTGTTGT-AATTG-AG
1 -TGTTTAAATGTTGTAAATTGAAG
* *
67976587 TTGTATAAATGTTGTTAATTGATA-
1 -TGTTTAAATGTTGTAAATTGA-AG
* * *
67976611 TG-TTAAAGTGCTGCAAGTTGAAG
1 TGTTTAAA-TGTTGTAAATTGAAG
*
67976634 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
67976657 TGCTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
* *
67976680 TGTTTTAA-GTACTGCAAATTGAAG
1 TGTTTAAATGT--TGTAAATTGAAG
67976704 TGTTTA
1 TGTTTA
67976710 GTTGCTGGAA
Statistics
Matches: 195, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
22 27 0.14
23 146 0.75
24 21 0.11
25 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (23 bp):
TGTTTAAATGTTGTAAATTGAAG
Found at i:67976562 original size:69 final size:68
Alignment explanation
Indices: 67976449--67976762 Score: 226
Period size: 69 Copynumber: 4.5 Consensus size: 68
67976439 GATGGCTGCT
* * * * * *
67976449 GATGTTTAAATGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTATTTAAATGTTGTAAA
1 GATGTTTAAATGCTGCAAATTGAAGTGTTT-AGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAA
67976514 TTGA
65 TTGA
* * * * * *
67976518 -AGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTATTGTTGT-
1 GA-TGTTTAAATGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATTGAAG-TGTTTAAATGCTGTA
67976580 AATTGA
63 AATTGA
* * * ** * *
67976586 GTTGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCAAGTTGAAGTGTTTAAATGCTGTAA
1 GATGTTTAAATGCTGCAAATTGA-AGTGTT-TAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
67976650 ATTGA
64 ATTGA
* * * * ** *
67976655 -AGTGCTTAAATGTTGTAAATTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGA
1 GA-TGTTTAAATGCTGCAAATTGAAGTG-TTT-AGTGCTGCAAATTGAAGTGTTTAAATGCTGTA
67976719 AATTGA
63 AATTGA
* * *
67976725 GATGTTT-TATCGCCGCAAATTGGAGTGTTTAGTTGCTG
1 GATGTTTAAAT-GCTGCAAATTGAAGTGTTTAG-TGCTG
67976763 AAAAAGAGAT
Statistics
Matches: 191, Mismatches: 39, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
68 53 0.28
69 86 0.45
70 51 0.27
71 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (68 bp):
GATGTTTAAATGCTGCAAATTGAAGTGTTTAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
TGA
Found at i:67976669 original size:91 final size:91
Alignment explanation
Indices: 67976451--67976677 Score: 273
Period size: 91 Copynumber: 2.5 Consensus size: 91
67976441 TGGCTGCTGA
*
67976451 TGTTTAAATGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTATTTAAATGTTGTAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTG-AGTATTTAAATGTTGTAAATT
*
67976516 GAAGTGTTTAAGTACTGCAAATTGAAG
65 GAAGTGTTAAAGTACTGCAAATTGAAG
** * * * *
67976543 TGTTTAGTTGCTGGAAATTG-AGATGTTTTATTGTTGT-AATTGAGT-TGTATAAATGTTGTTAA
1 TGTTTAAATGCTGCAAATTGAAG-TGTTTAAATGTTGTAAATTGAGTAT-T-TAAATGTTGTAAA
* *
67976605 TTGATA-TGTTAAAGTGCTGCAAGTTGAAG
63 TTGA-AGTGTTAAAGTACTGCAAATTGAAG
* *
67976634 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGA
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGA
67976678 AGTGTTTTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
89 1 0.01
90 4 0.04
91 71 0.63
92 37 0.33
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (91 bp):
TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGTATTTAAATGTTGTAAATTG
AAGTGTTAAAGTACTGCAAATTGAAG
Found at i:67976675 original size:114 final size:114
Alignment explanation
Indices: 67976478--67976686 Score: 262
Period size: 114 Copynumber: 1.8 Consensus size: 114
67976468 TTGAAGTGTT
* * *
67976478 TAAATGTTGTAAATTGAAGTATTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
1 TAAATGTTGTAAATTGAAGTATTTAAATGCTGCAAATTGAAGTGTTTAAATACTGCAAATTGAAG
* **
67976543 TGTTTAGTTGCTGGAAATTG-AGATGTTTTATTGTTGTAATTGAGTTGTA
66 TGCTTAAATGCTGGAAATTGAAG-TGTTTTATTGTTGTAATTGAGTTGTA
* * * *
67976592 TAAATGTTGTTAATTG-A-TATGTTAAAGTGCTGCAAGTTGAAGTGTTTAAATGCTGTAAATTGA
1 TAAATGTTGTAAATTGAAGTAT-TTAAA-TGCTGCAAATTGAAGTGTTTAAATACTGCAAATTGA
* *
67976655 AGTGCTTAAATGTTGTAAATTGAAGTGTTTTA
64 AGTGCTTAAATGCTGGAAATTGAAGTGTTTTA
67976687 AGTACTGCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
112 3 0.04
113 6 0.08
114 69 0.86
115 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.42
Consensus pattern (114 bp):
TAAATGTTGTAAATTGAAGTATTTAAATGCTGCAAATTGAAGTGTTTAAATACTGCAAATTGAAG
TGCTTAAATGCTGGAAATTGAAGTGTTTTATTGTTGTAATTGAGTTGTA
Found at i:67976698 original size:24 final size:24
Alignment explanation
Indices: 67976453--67976754 Score: 129
Period size: 23 Copynumber: 13.1 Consensus size: 24
67976443 GCTGCTGATG
* *
67976453 TTTAAATGTTGCAAATTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
* * * *
67976476 TTTAAATGTTGTAAATTGAAGT-A
1 TTTAAGTGCTGCAAATTGAAGTGT
* * *
67976499 TTTAAATGTTGTAAATTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
*
67976522 TTTAAGTACTGCAAATTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
*
67976545 TTT-AGTTGCTGGAAATTG-AGATGT
1 TTTAAG-TGCTGCAAATTGAAG-TGT
* * *
67976569 TTT-ATTGTTG-TAATTG-AGT-T
1 TTTAAGTGCTGCAAATTGAAGTGT
* * * **
67976589 GTATAAATGTTGTTAATTGATA-TG-
1 -TTTAAGTGCTGCAAATTGA-AGTGT
* *
67976613 TTAAAGTGCTGCAAGTTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
* *
67976636 TTTAAATGCTGTAAATTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
* * * *
67976659 CTTAAATGTTGTAAATTGAAGTGT
1 TTTAAGTGCTGCAAATTGAAGTGT
*
67976683 TTTAAGTACTGCAAATTGAAGTG-
1 TTTAAGTGCTGCAAATTGAAGTGT
*
67976706 TTT-AGTTGCTGGAAATTG-AGATGT
1 TTTAAG-TGCTGCAAATTGAAG-TGT
* *
67976730 TTT-A-TCGCCGCAAATTGGAGTGT
1 TTTAAGT-GCTGCAAATTGAAGTGT
67976753 TT
1 TT
67976755 AGTTGCTGAA
Statistics
Matches: 227, Mismatches: 34, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
20 1 0.00
21 3 0.01
22 23 0.10
23 170 0.75
24 29 0.13
25 1 0.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (24 bp):
TTTAAGTGCTGCAAATTGAAGTGT
Found at i:67977209 original size:19 final size:19
Alignment explanation
Indices: 67977186--67977232 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
67977176 ATTTAATCTA
*
67977186 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
67977204 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
67977224 ATTTTTATT
1 ATTTTTATT
67977233 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:67977983 original size:18 final size:18
Alignment explanation
Indices: 67977948--67978001 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
67977938 ATTCAATATC
* *
67977948 TATACTCAATAATCATAA
1 TATATTCAATTATCATAA
*
67977966 TCATATTCTATT-TCATAAA
1 T-ATATTCAATTATCAT-AA
67977985 TATATTCAATTATCATA
1 TATATTCAATTATCATA
67978002 CTTACTCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATTCAATTATCATAA
Found at i:67980467 original size:13 final size:14
Alignment explanation
Indices: 67980451--67980482 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
67980441 TTATTATAAA
67980451 TAATTATAAT-GTT
1 TAATTATAATGGTT
67980464 TAATTATAATGGTT
1 TAATTATAATGGTT
67980478 TAATT
1 TAATT
67980483 CGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:67980943 original size:21 final size:21
Alignment explanation
Indices: 67980895--67980944 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
67980885 GAGTGGATGT
** *
67980895 AGCAGCGAGGGAGGCAGCGGC
1 AGCAGCGAAAGAGGCAGAGGC
*
67980916 TGCAGCGAAAGAGGCAGAGGC
1 AGCAGCGAAAGAGGCAGAGGC
*
67980937 AGTAGCGA
1 AGCAGCGA
67980945 TGGTAGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.46, T:0.04
Consensus pattern (21 bp):
AGCAGCGAAAGAGGCAGAGGC
Found at i:67981218 original size:31 final size:31
Alignment explanation
Indices: 67981172--67981241 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
67981162 TTGTTGTATT
67981172 TTTTATGCTACATTTGCTATTTTTGGTTAGA
1 TTTTATGCTACATTTGCTATTTTTGGTTAGA
* * * * *
67981203 TTTTATGTTATATTTGTTGTTTTTGGTTGGA
1 TTTTATGCTACATTTGCTATTTTTGGTTAGA
*
67981234 TTTAATGC
1 TTTTATGC
67981242 AGGAAGGGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.59
Consensus pattern (31 bp):
TTTTATGCTACATTTGCTATTTTTGGTTAGA
Found at i:67981899 original size:12 final size:12
Alignment explanation
Indices: 67981882--67981949 Score: 61
Period size: 12 Copynumber: 5.6 Consensus size: 12
67981872 TTCAAAAATT
67981882 ATAAAAATTCAA
1 ATAAAAATTCAA
67981894 ATAAAAA-TCAA
1 ATAAAAATTCAA
* *
67981905 ATTAAAATTAAAAA
1 ATAAAAATT--CAA
67981919 ATATAAAAGTTC--
1 ATA-AAAA-TTCAA
67981931 ATAAAAATTCAA
1 ATAAAAATTCAA
67981943 ATAAAAA
1 ATAAAAA
67981950 ACTATAAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
10 3 0.07
11 14 0.31
12 18 0.40
14 4 0.09
15 4 0.09
16 2 0.04
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (12 bp):
ATAAAAATTCAA
Found at i:67981918 original size:39 final size:39
Alignment explanation
Indices: 67981863--67981949 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
67981853 ATGTCATGTC
*
67981863 AATAAATAATTCAAAAATTATAAAAATTCAAATAAAAA-TCA
1 AATAAA-AATTCAAAAAATATAAAAATTC--ATAAAAATTCA
* *
67981904 AATTAAAATT-AAAAAATATAAAAGTTCATAAAAATTCA
1 AATAAAAATTCAAAAAATATAAAAATTCATAAAAATTCA
67981942 AATAAAAA
1 AATAAAAA
67981950 ACTATAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 7 0.17
38 10 0.24
39 15 0.37
40 4 0.10
41 5 0.12
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (39 bp):
AATAAAAATTCAAAAAATATAAAAATTCATAAAAATTCA
Found at i:67982565 original size:5 final size:5
Alignment explanation
Indices: 67982555--67982595 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
67982545 CGGAAAAAGC
*
67982555 GAAAA GAAAA GAAAA GAAAA GAAAC GAAAA GAAAA GGAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA -GAAAA
67982596 TTAAAAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:67986747 original size:23 final size:23
Alignment explanation
Indices: 67986715--67986761 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
67986705 CCTAGGTCTG
67986715 GAAAGAACAATACGCTGAAACTT
1 GAAAGAACAATACGCTGAAACTT
* * *
67986738 GAAAGGACAATATGCTGAAGCTT
1 GAAAGAACAATACGCTGAAACTT
67986761 G
1 G
67986762 TACTCTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (23 bp):
GAAAGAACAATACGCTGAAACTT
Found at i:67986903 original size:32 final size:32
Alignment explanation
Indices: 67986867--67986928 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
67986857 GTCATTTTTC
67986867 AGTGATATAGTTAAAAAAGAGCATGAATCAGG
1 AGTGATATAGTTAAAAAAGAGCATGAATCAGG
*
67986899 AGTGATATAGTTAAAAAAGAGCATGGATCA
1 AGTGATATAGTTAAAAAAGAGCATGAATCA
67986929 AGTAAGACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (32 bp):
AGTGATATAGTTAAAAAAGAGCATGAATCAGG
Found at i:67990466 original size:50 final size:49
Alignment explanation
Indices: 67990381--67990561 Score: 147
Period size: 49 Copynumber: 3.7 Consensus size: 49
67990371 TACGAGATGT
* * *
67990381 GTCAGTGTAATACCACGTCTGGGACAAGGCATCGGCAC-AAATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTAAAT-TGTGAGA
** * * *
67990431 G-CTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCAATTTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAAATTGTGAGA
* * * **
67990480 GTCAGTGTAAGACTATGTCTGGGACATGGCAT-TGACTTGA-TG-GATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAAATTGTGA-GA
* * *
67990527 GCCAGTGTAAGACCATATATGGGACATGGCATCGG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
67990562 TATTATACCC
Statistics
Matches: 104, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
46 2 0.02
47 30 0.29
48 5 0.05
49 34 0.33
50 33 0.32
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAAATTGTGAGA
Found at i:67994528 original size:29 final size:29
Alignment explanation
Indices: 67994453--67994575 Score: 133
Period size: 29 Copynumber: 4.3 Consensus size: 29
67994443 AAGTCTTCAT
* *
67994453 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
67994481 TCATTCATATGACCCATTAGACCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * **
67994510 ACATTCATTTGGCCTATTAGGCATAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
67994539 ATATTCATATGGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
67994567 ACACTCATA
1 ACATTCATA
67994576 GTCATACTTT
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 30 0.40
29 45 0.60
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:67995610 original size:4 final size:4
Alignment explanation
Indices: 67995603--67995633 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
67995593 ATATATACTA
67995603 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
67995634 AATACAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:67998310 original size:29 final size:28
Alignment explanation
Indices: 67998241--67998363 Score: 158
Period size: 29 Copynumber: 4.3 Consensus size: 28
67998231 AAGTCTACAT
* *
67998241 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
**
67998269 TTATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
67998298 ACATTCA-ATTGGCCCATTAGGGCCAAATC
1 ACATTCATA-TGGCCCATTA-GGCCCAATC
*
67998327 AGATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
67998355 ACATTCATA
1 ACATTCATA
67998364 GTCATGCTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
28 37 0.46
29 39 0.48
30 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:68004340 original size:128 final size:128
Alignment explanation
Indices: 68004099--68004342 Score: 373
Period size: 127 Copynumber: 1.9 Consensus size: 128
68004089 AAAATAGAAG
* * * *
68004099 TAAAGGTTGGTTGTGGATGGTGGTGATATAGTGGTGCAAATAAGCTTATGGCAGAGAAAAGAAAA
1 TAAAGGTTAGTTGTGGATGGTGGTGATATAGTGGTACAAATAAGCTTACGACAGAGAAAAGAAAA
* *
68004164 ATGGTGGTGGTAGTGGTTGTCAAAAGAGAGAAAAGAAGGGTGGAGAGGAGAGAAAAGGAAAGT
66 AAGGTGGTGGTAGTGGTTGTCAAAAGAGAGAAAAAAAGGGTGGAGAGGAGAGAAAAGGAAAGT
* * **
68004227 TAAA-GTTAGTTGTGGATGGTGGTGATGTGGTGGTACAAATAAGCTTACGATGGAGAAAAGAAAA
1 TAAAGGTTAGTTGTGGATGGTGGTGATATAGTGGTACAAATAAGCTTACGACAGAGAAAAGAAAA
*
68004291 AAGGATGGTGGTGGTGGTTGTCAAAAGAGAGAAAAAAAGGGTGGAGAGGAGA
66 AAGG-TGGTGGTAGTGGTTGTCAAAAGAGAGAAAAAAAGGGTGGAGAGGAGA
68004343 AAGAAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
127 55 0.53
128 49 0.47
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.21
Consensus pattern (128 bp):
TAAAGGTTAGTTGTGGATGGTGGTGATATAGTGGTACAAATAAGCTTACGACAGAGAAAAGAAAA
AAGGTGGTGGTAGTGGTTGTCAAAAGAGAGAAAAAAAGGGTGGAGAGGAGAGAAAAGGAAAGT
Found at i:68020986 original size:48 final size:48
Alignment explanation
Indices: 68020922--68021150 Score: 331
Period size: 48 Copynumber: 5.0 Consensus size: 48
68020912 AATATATATG
68020922 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
* *
68020970 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
68021018 TATGTGGTAAAGCCGAATGGCTAGTGTG----A--TAT--G-TA--TA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
68021055 --TGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
68021101 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
68021149 TA
1 TA
68021151 GAATAGACCA
Statistics
Matches: 161, Mismatches: 7, Indels: 26
0.83 0.04 0.13
Matches are distributed among these distances:
35 25 0.16
37 2 0.01
39 3 0.02
40 1 0.01
41 3 0.02
42 3 0.02
43 1 0.01
44 3 0.02
46 2 0.01
48 118 0.73
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
Found at i:68021056 original size:35 final size:35
Alignment explanation
Indices: 68021010--68021090 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
68021000 ATATGTATGA
68021010 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
*
68021045 GATATGTATATGTGGTAAAGCTGAATGGCTAGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
68021080 GAAATATGTAT
1 G--ATATGTAT
68021091 GAGATATGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 35 0.81
37 8 0.19
ACGTcount: A:0.31, C:0.06, G:0.30, T:0.33
Consensus pattern (35 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
Found at i:68021056 original size:83 final size:83
Alignment explanation
Indices: 68020962--68021138 Score: 300
Period size: 83 Copynumber: 2.1 Consensus size: 83
68020952 ATATGTATGA
68020962 GATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTA
*
68021027 AAGCCGAATGGCTAGTGT
66 AAGCCGAATGGCTAATGT
* * *
68021045 GATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTA
68021110 AAGCCGAATGGCTAATGT
66 AAGCCGAATGGCTAATGT
68021128 GAAATATGTAT
1 G--ATATGTAT
68021139 GAGATATGTA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
83 80 0.91
85 8 0.09
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (83 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAATGT
Found at i:68024717 original size:55 final size:53
Alignment explanation
Indices: 68024587--68024781 Score: 196
Period size: 55 Copynumber: 3.6 Consensus size: 53
68024577 TTACCATTGT
*
68024587 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
* * * *
68024640 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATGC
*** ** *
68024695 CATGTCTTGACATGGTCTTACATGATTTCCTCACCTTA-GAAACCTTACCAATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TGC
* * *
68024750 CATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGGATCCTT
68024782 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.31
54 8 0.07
55 69 0.59
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
Found at i:68028347 original size:40 final size:40
Alignment explanation
Indices: 68028292--68028372 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
68028282 TCATCATGAG
*
68028292 AATAAATCAAGATATCATCAATGAACACAACTACATGTTT
1 AATAAATCAAGATATCATCAATGAACACAACTACAAGTTT
68028332 AATAAATCAAGATATCATCAATGAACACAACTACAAGTTT
1 AATAAATCAAGATATCATCAATGAACACAACTACAAGTTT
68028372 A
1 A
68028373 TCCAAGTACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.26
Consensus pattern (40 bp):
AATAAATCAAGATATCATCAATGAACACAACTACAAGTTT
Found at i:68032265 original size:57 final size:54
Alignment explanation
Indices: 68032145--68032343 Score: 205
Period size: 55 Copynumber: 3.7 Consensus size: 54
68032135 ATACGCGAGT
* ** *
68032145 ACCTTACC-ATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-AAA
1 ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATGGGA-CCTTACCTTAAAA
* *
68032195 A-CTTACC-ATTGCCATGTCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGTA
1 ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATGGGACC-TTACCTTA-A-AA
*** *
68032250 ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATGATTTCCTTGCCTTAAAA
1 ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATG-GGACCTTACCTTAAAA
*
68032305 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGG
1 ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATGG
68032344 TAACCTTAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
48 2 0.02
49 35 0.28
50 1 0.01
52 2 0.02
54 1 0.01
55 40 0.32
56 7 0.06
57 35 0.28
58 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
ACCTTACCAATTGCCATGACTTGGCATGGTCTTACATGGGACCTTACCTTAAAA
Found at i:68038647 original size:53 final size:52
Alignment explanation
Indices: 68038438--68038644 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 52
68038428 ATATATCATA
*** * * * * *
68038438 CCGATGCCATATTTCAGATATGGTCTTACACGGAAACACTTATCACATTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTAT
* * * *
68038490 CTGATGCCATAACCCAGCTATGGTCTTATACAG-ATCACTTGTATCACTTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTAT
* * * *
68038543 CCGAAGCCATAGCTCGGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTAT
*
68038597 CCGATGCCATAGCCCAACTAT-GTCTTATACGGATATCACTTATCACTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTT
68038645 GTTGCCATGG
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
51 4 0.03
52 28 0.22
53 69 0.55
54 20 0.16
55 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTAT
Found at i:68043042 original size:40 final size:40
Alignment explanation
Indices: 68042878--68043042 Score: 185
Period size: 40 Copynumber: 4.1 Consensus size: 40
68042868 CGGAATTTAA
** *
68042878 CCGGATATAGCTA-CTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TATCTCGCACAAATGCCTTCGGGACTTAGC
* *
68042918 CCGGTTATAGTATCTCGCACAAATGCCTTCGGGGCTTAGC
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
* *
68042958 CCGGATTTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGA-CTTAGC
* *
68042998 CCGGATATGGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ATC-TCGCACAAATGCCTTCGGGACTTAGC
68043038 CCGGA
1 CCGGA
68043043 CATCATTCAA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.04
40 91 0.85
41 12 0.11
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
Found at i:68056955 original size:53 final size:52
Alignment explanation
Indices: 68056823--68057012 Score: 190
Period size: 53 Copynumber: 3.6 Consensus size: 52
68056813 ATATTCCGGA
* *
68056823 TATGGTCTTACACGGAAA-CACTTATCACATTTCTTTGATGCCATAGCCCAGC
1 TATGGTCTTATACGGAAATCACTTATCAC-TTTATTTGATGCCATAGCCCAGC
* * * * * *
68056875 TATGGTCTTATATGG--ATTAGTTGTATCACTTTAATCTGAAGCCATAGCCCGGC
1 TATGGTCTTATACGGAAATCA-CT-TATCACTTT-ATTTGATGCCATAGCCCAGC
* *
68056928 TATGGTCTTATACGGAAATCACTTATCACTTGTTTTTCGATGCCATAGCCCAAC
1 TATGGTCTTATACGGAAATCACTTATCACTT-TATTT-GATGCCATAGCCCAGC
*
68056982 TATGGTCTTATAC-GAATGTCACTTATCACTT
1 TATGGTCTTATACGGAA-ATCACTTATCACTT
68057013 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 17 0.15
53 49 0.44
54 41 0.37
55 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (52 bp):
TATGGTCTTATACGGAAATCACTTATCACTTTATTTGATGCCATAGCCCAGC
Found at i:68062264 original size:6 final size:6
Alignment explanation
Indices: 68062246--68062342 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
68062236 AAGAAACATT
* * *
68062246 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
68062295 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
68062343 GTCACAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:68062291 original size:31 final size:31
Alignment explanation
Indices: 68062230--68062354 Score: 146
Period size: 31 Copynumber: 4.1 Consensus size: 31
68062220 TAACCCATAA
* * *
68062230 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * * *
68062260 CAGAATCAAAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
68062291 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* *
68062322 CAAAATCAGAATCAGTATCAGGTCACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
68062353 CA
1 CA
68062355 AAAATCAGGA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.17
31 64 0.80
32 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:68062552 original size:6 final size:6
Alignment explanation
Indices: 68062534--68062624 Score: 71
Period size: 6 Copynumber: 14.8 Consensus size: 6
68062524 AAGAAACATT
* *
68062534 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
68062583 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
68062625 CTAACAGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Done.