Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 171 of 187
Found at i:52100687 original size:24 final size:25
Alignment explanation
Indices: 52100646--52100692 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
52100636 AAATTTCGGA
*
52100646 AAGAATTTCTCAGAAAC-ACTTTTG
1 AAGAATTCCTCAGAAACAACTTTTG
52100670 AAGAATTCCTTCAG-AACAACTTT
1 AAGAATTCC-TCAGAAACAACTTT
52100693 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (25 bp):
AAGAATTCCTCAGAAACAACTTTTG
Found at i:52104776 original size:25 final size:27
Alignment explanation
Indices: 52104712--52104782 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
52104702 AATGCTCATA
*
52104712 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGGGAAGCTCTATCT
*
52104739 CGAGCCATATAACGGGAAGCTC-ATGT
1 CGAGCCATATAACGGGAAGCTCTATCT
*
52104765 -GAGCCATGTAACGGGAAG
1 CGAGCCATATAACGGGAAG
52104783 TTGATTCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 17 0.43
26 6 0.15
27 17 0.43
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (27 bp):
CGAGCCATATAACGGGAAGCTCTATCT
Found at i:52104931 original size:25 final size:25
Alignment explanation
Indices: 52104864--52104949 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
52104854 AGCTCCGGAT
*
52104864 AGCCATATATTAGGAAGCTCATGAAAG
1 AGCCATATATTAGGAAGCTC--CAAAG
* **
52104891 AGCC-TTTAATCGGGAAGCTCCAAAG
1 AGCCATAT-ATTAGGAAGCTCCAAAG
*
52104916 AGCCATATATTAGGAAGAT-CAAGAG
1 AGCCATATATTAGGAAGCTCCAA-AG
52104941 AGCCA-ATAT
1 AGCCATATAT
52104950 CAAGATGATC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
24 7 0.15
25 23 0.48
26 4 0.08
27 14 0.29
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (25 bp):
AGCCATATATTAGGAAGCTCCAAAG
Found at i:52112580 original size:27 final size:27
Alignment explanation
Indices: 52112550--52112628 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 27
52112540 ATTCAAGAAT
52112550 GCTCACACGAGCACATA-AACGGGAAGC
1 GCTCACACGAGC-CATATAACGGGAAGC
* * *
52112577 GCTCTCTCGAGCCATATAATGGGAA--
1 GCTCACACGAGCCATATAACGGGAAGC
*** *
52112602 GCTCATGTGAGCCATGTAACGGGAAGC
1 GCTCACACGAGCCATATAACGGGAAGC
52112629 TTATACGAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 19 0.47
26 4 0.10
27 17 0.43
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.16
Consensus pattern (27 bp):
GCTCACACGAGCCATATAACGGGAAGC
Found at i:52114280 original size:24 final size:26
Alignment explanation
Indices: 52114253--52114311 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
52114243 AAGCTCATAT
*
52114253 GAGCCAATA-AT-AGGAAGCTCCAGA
1 GAGCCAATATATCAGGAAGCTCAAGA
*
52114277 GAGCC-ATATATCATGAAGCTCAAGA
1 GAGCCAATATATCAGGAAGCTCAAGA
52114302 GAGCCAATAT
1 GAGCCAATAT
52114312 TGAGATGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 7 0.23
25 16 0.53
26 4 0.13
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (26 bp):
GAGCCAATATATCAGGAAGCTCAAGA
Found at i:52126812 original size:27 final size:27
Alignment explanation
Indices: 52126781--52126958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52126771 TAAATTGTAC
52126781 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52126808 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52126834 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52126862 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52126890 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52126917 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52126944 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52126959 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:52126895 original size:82 final size:81
Alignment explanation
Indices: 52126782--52126937 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52126772 AAATTGTACA
* *
52126782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52126846 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52126863 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52126928 TGCGAGTTGA
65 TGCGAATTGA
52126938 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:52126949 original size:82 final size:81
Alignment explanation
Indices: 52126778--52126958 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
52126768 GATTAAATTG
* *
52126778 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52126843 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52126859 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52126923 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52126941 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52126959 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:52131268 original size:43 final size:43
Alignment explanation
Indices: 52131207--52131448 Score: 304
Period size: 43 Copynumber: 5.6 Consensus size: 43
52131197 TATACTTTGA
* *
52131207 TATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
*
52131250 TATTATCCGATGATGCACTGTGTGTGCCAGTATGTTGCTTCGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* * * * * *
52131293 TATTATCCGATGATACACTGTGTGTGCTAGTATGTTTCTTTGA
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* * ** *
52131336 TTTTATTCGATGATGCACTATGTGTGGTAGTATGTTGCTTCGA
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* **
52131379 TTTTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTTAG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
** *
52131422 TATTATTTGATGATGCACTGTGTGTGC
1 TATTATCCGATGATGCACTATGTGTGC
52131449 TAGTTTAATT
Statistics
Matches: 174, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 174 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (43 bp):
TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
Found at i:52131434 original size:129 final size:129
Alignment explanation
Indices: 52131201--52131452 Score: 378
Period size: 129 Copynumber: 2.0 Consensus size: 129
52131191 GCAAGTTATA
*
52131201 CTTTGATATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGC
1 CTTTGATATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
* *
52131266 ACTGTGTGTGCCAGTATGTTGCTTCGGTATTATCCGATGATACACTGTGTGTGCTAGTATGTTT
66 ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGTATGTTT
* * * ** * *
52131330 CTTTGATTTTATTCGATGATGCACTATGTGTGGTAGTATGTTGCTTCGATTTTATCCGATGATGC
1 CTTTGATATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
* ** *
52131395 ACTATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCACTGTGTGTGCTAGT
66 ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGT
52131453 TTAATTGCGT
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (129 bp):
CTTTGATATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGTATGTTT
Found at i:52131487 original size:86 final size:82
Alignment explanation
Indices: 52131207--52131489 Score: 280
Period size: 86 Copynumber: 3.3 Consensus size: 82
52131197 TATACTTTGA
* * * * *
52131207 TATTATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGCACTGTG
1 TATTATCCGATGATACACTATGTGTGCCAGTATGTTGCTT-TGTATTATTCGATGATGCACTGTG
* *
52131272 TGTGCCAGTATGTTGCTTCGG
65 TGTGCTAGTATGTTG---CGT
* * * * *
52131293 TATTATCCGATGATACACTGTGTGTGCTAGTATGTTTCTTTGATTTTATTCGATGATGCACTATG
1 TATTATCCGATGATACACTATGTGTGCCAGTATGTTGCTTTG-TATTATTCGATGATGCACTGTG
*
52131358 TGTGGTAGTATGTTGC-T
65 TGTGCTAGTATGTTGCGT
* *
52131375 TCGATTTTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCAC
1 T--A--TTATCCGATGATACACTATGTGTGCCAGTATGTTGCTTT-GTATTATTCGATGATGCAC
* *
52131440 TGTGTGTGCTAGTTTAATTGCGT
61 TGTGTGTGCTAGTAT-GTTGCGT
*
52131463 TATTCATCCAATGATACACTTATGTGT
1 TATT-ATCCGATGATACAC-TATGTGT
52131490 TAGTAGTGAT
Statistics
Matches: 162, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
82 1 0.01
83 1 0.01
84 3 0.02
85 13 0.08
86 137 0.85
87 5 0.03
88 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (82 bp):
TATTATCCGATGATACACTATGTGTGCCAGTATGTTGCTTTGTATTATTCGATGATGCACTGTGT
GTGCTAGTATGTTGCGT
Found at i:52131487 original size:129 final size:129
Alignment explanation
Indices: 52131203--52131489 Score: 328
Period size: 129 Copynumber: 2.2 Consensus size: 129
52131193 AAGTTATACT
* * * ** *
52131203 TTGATATT-ATCCGATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGCA
1 TTGAT-TTCATCCAATGATACACTATGTGTGGTAGTATGTCGCTTCGATATTATCCGATGATGCA
* * * * *
52131267 CTGTGTGTGCCAGTATGTTGCTTCGGTATTATCCGATGATACACTGTGTGTGCTAGTATGTTTCT
65 CTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGTATATTGCG
* * * * * *
52131332 TTGATTTTATTCGATGATGCACTATGTGTGGTAGTATGTTGCTTCGATTTTATCCGATGATGCAC
1 TTGATTTCATCCAATGATACACTATGTGTGGTAGTATGTCGCTTCGATATTATCCGATGATGCAC
* ** * *
52131397 TATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCACTGTGTGTGCTAGTTTAATTGCG
66 TATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGTAT-ATTGCG
52131462 TT-A-TTCATCCAATGATACACTTATGTGT
1 TTGATTTCATCCAATGATACAC-TATGTGT
52131490 TAGTAGTGAT
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
128 15 0.11
129 114 0.85
130 5 0.04
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (129 bp):
TTGATTTCATCCAATGATACACTATGTGTGGTAGTATGTCGCTTCGATATTATCCGATGATGCAC
TATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTGTGTGTGCTAGTATATTGCG
Found at i:52134370 original size:20 final size:19
Alignment explanation
Indices: 52134315--52134362 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
52134305 ATGACAAAGT
**
52134315 TGAGAAATG-AATATGGGA
1 TGAGAAATGAAATATGAAA
52134333 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
52134352 TGATGAAATGA
1 TGA-GAAATGA
52134363 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:52140412 original size:59 final size:59
Alignment explanation
Indices: 52140346--52140542 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
52140336 ATCAAAATGG
52140346 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
1 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
* * * * * *
52140405 TATTGATTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATA--
1 TATTGATTTTT---ATT--TA-AG-TA-TCGATACT-T-T-C--TCATAAAATA--TCG-ATACC
* **
52140468 TCAAAAT-GG
50 ACAAAATAAT
52140477 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
1 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
52140536 TATTGAT
1 TATTGAT
52140543 ACCTTTGTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 38
0.64 0.11 0.24
Matches are distributed among these distances:
56 3 0.03
57 2 0.02
58 6 0.06
59 27 0.27
61 1 0.01
62 4 0.04
63 1 0.01
64 7 0.07
65 3 0.03
66 3 0.03
67 7 0.07
68 1 0.01
69 4 0.04
70 1 0.01
72 20 0.20
73 6 0.06
74 2 0.02
75 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (59 bp):
TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
Found at i:52140514 original size:131 final size:131
Alignment explanation
Indices: 52140280--52140542 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 131
52140270 TGTATCGATG
*
52140280 TTTTTGGCATTGGTATTGATACTTGTTATTATGTATAGTCTTAAAATAAATAGAATATCAAAATG
1 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
52140345 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
66 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
52140410 A
131 A
52140411 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
1 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
52140476 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
66 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
52140541 A
131 A
52140542 T
1 T
52140543 ACCTTTGTTT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (131 bp):
TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
A
Found at i:52147135 original size:29 final size:28
Alignment explanation
Indices: 52147099--52147176 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
52147089 TCATGAGATT
52147099 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
52147129 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
52147156 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
52147177 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:52147394 original size:174 final size:174
Alignment explanation
Indices: 52147129--52147456 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
52147119 AAATTGTACA
*
52147129 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
52147194 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
52147259 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
52147303 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
52147368 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
52147433 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
52147457 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:52155073 original size:29 final size:28
Alignment explanation
Indices: 52155037--52155114 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
52155027 TCATGAGATT
52155037 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
52155067 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
52155094 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
52155115 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:52155332 original size:174 final size:174
Alignment explanation
Indices: 52155067--52155394 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
52155057 AAATTGTACA
*
52155067 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
52155132 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
52155197 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
52155241 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
52155306 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
52155371 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
52155395 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:52168886 original size:12 final size:12
Alignment explanation
Indices: 52168869--52168896 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52168859 CCACACGCCT
52168869 GTGTGCTAGGCC
1 GTGTGCTAGGCC
52168881 GTGTGCTAGGCC
1 GTGTGCTAGGCC
52168893 GTGT
1 GTGT
52168897 AACTACCTAA
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:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:52170461 original size:16 final size:17
Alignment explanation
Indices: 52170430--52170463 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
52170420 ATATTCAGCC
*
52170430 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
52170447 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
52170463 C
1 C
52170464 CCTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:52177169 original size:35 final size:36
Alignment explanation
Indices: 52177115--52177205 Score: 139
Period size: 35 Copynumber: 2.6 Consensus size: 36
52177105 ATGTATGTAT
* *
52177115 TTGTCAGTTTATCCAACTAGCACTGGGCGCAACTCA
1 TTGTCGGTTTATCCGACTAGCACTGGGCGCAACTCA
*
52177151 -TGTCGGTTTATCTGACTAGCACTGGGCGCAACTCA
1 TTGTCGGTTTATCCGACTAGCACTGGGCGCAACTCA
*
52177186 TTGTTGGTTTATCCGACTAG
1 TTGTCGGTTTATCCGACTAG
52177206 TGGTGGCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 32 0.65
36 17 0.35
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (36 bp):
TTGTCGGTTTATCCGACTAGCACTGGGCGCAACTCA
Found at i:52177242 original size:76 final size:76
Alignment explanation
Indices: 52177152--52177321 Score: 209
Period size: 76 Copynumber: 2.2 Consensus size: 76
52177142 CGCAACTCAT
** * * *
52177152 GTCGGTTTATCTGACTAGCACTGGGCGCAACTCATTGTTGGTTTATCCGACTAGTGGT-GGCAAC
1 GTCGGTTTATCTGACTAGCACTGGGCGCAAAACATTATCGGTTTATCCAACTAGTGGTGGGC-AC
52177216 ACATTTGATATC
65 ACATTTGATATC
* * *
52177228 GTCGGTTTATCTGACTAGCACTGGGTGCAAAACATTATCGGTTTATTCAACTAGTGGTGGGCGCA
1 GTCGGTTTATCTGACTAGCACTGGGCGCAAAACATTATCGGTTTATCCAACTAGTGGTGGGCACA
*
52177293 CATTTGGTATC
66 CATTTGATATC
* *
52177304 ATCAGTTTAT-TCGACTAG
1 GTCGGTTTATCT-GACTAG
52177322 TGAAGAGCAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
75 1 0.01
76 77 0.95
77 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (76 bp):
GTCGGTTTATCTGACTAGCACTGGGCGCAAAACATTATCGGTTTATCCAACTAGTGGTGGGCACA
CATTTGATATC
Found at i:52180200 original size:18 final size:18
Alignment explanation
Indices: 52180177--52180212 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
52180167 TTAGCTACTT
52180177 GGGAAAGGGAGAACGTGA
1 GGGAAAGGGAGAACGTGA
*
52180195 GGGAAAGGGAGAATGTGA
1 GGGAAAGGGAGAACGTGA
52180213 AACAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.50, T:0.08
Consensus pattern (18 bp):
GGGAAAGGGAGAACGTGA
Found at i:52183051 original size:18 final size:17
Alignment explanation
Indices: 52183018--52183056 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
52183008 TTTTATAAAT
52183018 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
52183036 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
52183053 TGTG
1 TGTG
52183057 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:52187686 original size:22 final size:21
Alignment explanation
Indices: 52187645--52187686 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
52187635 AAAGTTAACC
52187645 TAAAAAAATACAATTAATTAG
1 TAAAAAAATACAATTAATTAG
52187666 TAAAATAAATA-AATTACATTA
1 TAAAA-AAATACAATTA-ATTA
52187687 CAACAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAAAATACAATTAATTAG
Found at i:52190244 original size:15 final size:16
Alignment explanation
Indices: 52190224--52190257 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
52190214 ATCCTACTCC
52190224 TAAAATGAT-AAAAAT
1 TAAAATGATCAAAAAT
*
52190239 TAAAATGATCCAAAAT
1 TAAAATGATCAAAAAT
52190255 TAA
1 TAA
52190258 TCACAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAAATGATCAAAAAT
Found at i:52192366 original size:50 final size:51
Alignment explanation
Indices: 52192291--52192417 Score: 168
Period size: 50 Copynumber: 2.5 Consensus size: 51
52192281 GATGGTCAAG
* * *
52192291 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACC-GAATAGCATAGATCACA
* * * *
52192341 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCATAGATCACA
52192392 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
52192418 TGTGAACCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 3 0.04
50 33 0.49
51 32 0.47
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAATAGCATAGATCACA
Found at i:52192427 original size:51 final size:50
Alignment explanation
Indices: 52192291--52192427 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 50
52192281 GATGGTCAAG
* * * *
52192291 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGATCACA
* * *
52192341 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATAGATCACA
*
52192392 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
52192428 TATCATCAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 2 0.03
50 34 0.45
51 40 0.53
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGATCACA
Found at i:52203204 original size:27 final size:27
Alignment explanation
Indices: 52203173--52203225 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
52203163 AAACCCTAAA
*
52203173 TGTCTGCCGATTGGCACATTTGCTTTC
1 TGTCTGCCGACTGGCACATTTGCTTTC
* *
52203200 TGTCTGCCGCCTGGCACATTTTCTTT
1 TGTCTGCCGACTGGCACATTTGCTTT
52203226 GGTTTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.09, C:0.28, G:0.21, T:0.42
Consensus pattern (27 bp):
TGTCTGCCGACTGGCACATTTGCTTTC
Found at i:52209330 original size:11 final size:11
Alignment explanation
Indices: 52209314--52209346 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
52209304 TATTTAAAAA
52209314 TATTTATAATT
1 TATTTATAATT
52209325 TATTTATAATT
1 TATTTATAATT
52209336 TATTTATAATT
1 TATTTATAATT
52209347 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATAATT
Found at i:52209477 original size:18 final size:18
Alignment explanation
Indices: 52209451--52209503 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
52209441 AATAGTGAAC
52209451 ATTATAATTATAATTTAA
1 ATTATAATTATAATTTAA
* * *
52209469 ATTACAATTATTAGTTAA
1 ATTATAATTATAATTTAA
*
52209487 A-AATAATTATAATTTAA
1 ATTATAATTATAATTTAA
52209504 TTTTAACATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTATAATTATAATTTAA
Found at i:52209525 original size:36 final size:35
Alignment explanation
Indices: 52209454--52209529 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
52209444 AGTGAACATT
*
52209454 ATAATTATAATTTAAATTACAATTATTAGTTAAAA
1 ATAATTATAATTTAAATTACAATTATTAGTAAAAA
*
52209489 ATAATTATAATTTAATTTTA-ACATTATTA-TAAAAA
1 ATAATTATAATTTAA-ATTACA-ATTATTAGTAAAAA
52209524 A-AATTA
1 ATAATTA
52209530 CTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 5 0.14
35 22 0.59
36 10 0.27
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (35 bp):
ATAATTATAATTTAAATTACAATTATTAGTAAAAA
Found at i:52209557 original size:21 final size:20
Alignment explanation
Indices: 52209512--52209564 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
52209502 AATTTTAACA
52209512 TTATTATAAAAAAAATTACTTT
1 TTATT-TAAAAAAAATTA-TTT
52209534 TTATTTAAAAAACAATT-TTGT
1 TTATTTAAAAAA-AATTATT-T
*
52209555 TTATGTAAAA
1 TTATTTAAAA
52209565 TAGAGTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 17 0.61
22 9 0.32
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
TTATTTAAAAAAAATTATTT
Found at i:52212743 original size:25 final size:25
Alignment explanation
Indices: 52212631--52212778 Score: 142
Period size: 25 Copynumber: 6.0 Consensus size: 25
52212621 GTACATGTAT
*
52212631 GCTCATACAAGCTGTA-AACGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*** *
52212655 GCTTC-TTTGAGCTAAATAACGGTAA
1 GC-TCATACAAGCTGAATAACGGTAA
* *
52212680 GCTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*
52212705 GCTCATACAAGCTGAATAATGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
* **
52212730 GCTCATACAAGCTGAGTATTGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*
52212755 GCTCATA-AGAGCTGAA-ATCGGTAA
1 GCTCATACA-AGCTGAATAACGGTAA
52212779 CCCTAATGAT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
24 18 0.17
25 86 0.83
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACAAGCTGAATAACGGTAA
Found at i:52212949 original size:14 final size:14
Alignment explanation
Indices: 52212916--52212949 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
52212906 TTCAATCAAA
*
52212916 GAATATAATTACAC
1 GAATTTAATTACAC
52212930 -AATTTAATTACAC
1 GAATTTAATTACAC
52212943 GAATTTA
1 GAATTTA
52212950 CCTCGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (14 bp):
GAATTTAATTACAC
Found at i:52216220 original size:84 final size:84
Alignment explanation
Indices: 52216117--52216399 Score: 566
Period size: 84 Copynumber: 3.4 Consensus size: 84
52216107 TCGGATAAAC
52216117 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
1 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
52216182 TGCTAAATTTAGCCAAAAT
66 TGCTAAATTTAGCCAAAAT
52216201 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
1 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
52216266 TGCTAAATTTAGCCAAAAT
66 TGCTAAATTTAGCCAAAAT
52216285 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
1 TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
52216350 TGCTAAATTTAGCCAAAAT
66 TGCTAAATTTAGCCAAAAT
52216369 TCTGATGCCTTCAGCCGATACTATGTGTCTT
1 TCTGATGCCTTCAGCCGATACTATGTGTCTT
52216400 CGATAACACT
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 199 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (84 bp):
TCTGATGCCTTCAGCCGATACTATGTGTCTTAGAAAACCAACTTCTCGGAGCCAAAACTCACATT
TGCTAAATTTAGCCAAAAT
Found at i:52220050 original size:25 final size:25
Alignment explanation
Indices: 52220016--52220086 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
52220006 ACGAACTGTA
*
52220016 AACGGTAAGCTCCT-CAGAGCTGAAT
1 AACGGTAAGCTCATAC-GAGCTGAAT
*
52220041 AACGGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
52220066 ATCGGTAAGCTCATAGGAGCT
1 AACGGTAAGCTCATACGAGCT
52220087 TAAATCGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:52222950 original size:10 final size:9
Alignment explanation
Indices: 52222891--52222950 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
52222881 AAATATTTTT
52222891 AAAAATTAA
1 AAAAATTAA
52222900 AAATAATTAA
1 AAA-AATTAA
**
52222910 AATGATT-A
1 AAAAATTAA
* *
52222918 AAAAAGTAT
1 AAAAATTAA
52222927 AAAAATATAA
1 AAAAAT-TAA
52222937 AAAAATATAA
1 AAAAAT-TAA
52222947 AAAA
1 AAAA
52222951 TATTCTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
8 5 0.12
9 11 0.28
10 24 0.60
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
AAAAATTAA
Found at i:52222953 original size:19 final size:18
Alignment explanation
Indices: 52222871--52222951 Score: 67
Period size: 18 Copynumber: 4.3 Consensus size: 18
52222861 TTGAAAAATT
*
52222871 AAAATTAAAAAAATATTTTTA
1 AAAATTAAAAAAATA---TAA
52222892 AAAATTAAAAATAAT-TAA
1 AAAATTAAAAA-AATATAA
* *
52222910 AATGATTAAAAAAGTAT-A
1 AA-AATTAAAAAAATATAA
52222928 AAAATATAAAAAAATATAA
1 AAAAT-TAAAAAAATATAA
52222947 AAAAT
1 AAAAT
52222952 ATTCTTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.04
18 19 0.38
19 15 0.30
21 11 0.22
22 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATTAAAAAAATATAA
Found at i:52237332 original size:20 final size:20
Alignment explanation
Indices: 52237307--52237345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
52237297 TGAGTTATTT
52237307 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAA-CAGAGTAAGTAAAC
52237327 AAGTAACAGAGTAAGTAAA
1 AAGTAACAGAGTAAGTAAA
52237346 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (20 bp):
AAGTAACAGAGTAAGTAAAC
Found at i:52242596 original size:45 final size:44
Alignment explanation
Indices: 52242503--52242680 Score: 180
Period size: 45 Copynumber: 4.0 Consensus size: 44
52242493 ACAGATTCAT
* * * * * *
52242503 GGTGG-ATCAGCACATAGC-ACCACCCTTATAGTTAATGATACTC
1 GGTGGAATCAGCACACAACAACCACCTTTATAATCAATG-TACCC
* * * * *
52242546 AGTGGAATCAACACATAGCAACCACCTTCATAATCAATAGTACCC
1 GGTGGAATCAGCACACAACAACCACCTTTATAATCAAT-GTACCC
* * *
52242591 GGTGGAATTAGCACACAACAACCACCTTTATAATTAATGATACCT
1 GGTGGAATCAGCACACAACAACCACCTTTATAATCAATG-TACCC
52242636 GGTGGAATCAGCACACAACAACCACCTTTATAATCAATGGTACCC
1 GGTGGAATCAGCACACAACAACCACCTTTATAATCAAT-GTACCC
52242681 TGTACACGTA
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
43 4 0.04
44 13 0.12
45 93 0.83
46 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (44 bp):
GGTGGAATCAGCACACAACAACCACCTTTATAATCAATGTACCC
Found at i:52249156 original size:50 final size:50
Alignment explanation
Indices: 52249096--52249227 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
52249086 TATTGACGTT
* * * *
52249096 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACAAGGCGTTGACACCCAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAG
** * * * *
52249146 ATGAAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAG
* *
52249196 ATGAGAA-CTCCCATGTAAGACCATATCTGGGA
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGA
52249228 TATGGCATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 65 0.97
51 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAG
Found at i:52249269 original size:49 final size:49
Alignment explanation
Indices: 52249160--52249338 Score: 227
Period size: 49 Copynumber: 3.6 Consensus size: 49
52249150 AAGGTCCCCC
* * * * *
52249160 GTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATATGAGAAC-TCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AACATCCCAT
52249210 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* *
52249259 GTAAGACCATATCTAGGATATGGCATTGACAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* * *
52249308 GTAAGACCATATCTGAGAAATGGCTTTGGCA
1 GTAAGACCATATCTGGGATATGGCATTGGCA
52249339 TGTTATTTTC
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 4 0.03
49 83 0.72
50 28 0.24
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (49 bp):
GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
Found at i:52249566 original size:20 final size:20
Alignment explanation
Indices: 52249541--52249579 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
52249531 TGAGTTATTT
52249541 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
52249561 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
52249580 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:52253071 original size:14 final size:14
Alignment explanation
Indices: 52253054--52253083 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52253044 CATTTAGTAT
*
52253054 GTATGATCATTTTA
1 GTATAATCATTTTA
52253068 GTATAATCATTTTA
1 GTATAATCATTTTA
52253082 GT
1 GT
52253084 TTAGTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
GTATAATCATTTTA
Found at i:52255955 original size:51 final size:50
Alignment explanation
Indices: 52255895--52256218 Score: 272
Period size: 51 Copynumber: 6.4 Consensus size: 50
52255885 GATGAACACG
** * *
52255895 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGATCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * * * *
52255946 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAA-ATATGGTCACA
* ** * * * *
52255997 TGTGTAATACTGTGTGAAGGCTACTTTGCGAATCGATAAATGATGGTCATA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * * * *
52256048 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAA-ATATGGTCACA
* ** * *
52256099 TGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * *
52256150 TGTGTAGTGCTAAGTGAAGGCTACTATGTGTACCGA-AAAGTTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAA--TATGGTCACA
* *
52256201 TATGTAGTACTATGTGAA
1 TGTGTAGTACTAAGTGAA
52256219 CCGTAAAACT
Statistics
Matches: 208, Mismatches: 59, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
50 5 0.02
51 200 0.96
52 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAATATGGTCACA
Found at i:52256071 original size:102 final size:102
Alignment explanation
Indices: 52255891--52256218 Score: 496
Period size: 102 Copynumber: 3.2 Consensus size: 102
52255881 TATCGATGAA
* * *
52255891 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
52255956 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
* * ** * *
52255993 CACATGTGTAATACTGTGTGAAGGCTACTTTGCGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
52256058 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
* *
52256095 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTGC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
52256160 TAAGTGAAGGCTACTATGTGTACCGAA-AAGTTTTGGT
66 TAAGTGAAGGCTACAATGTGTACC-AAGAAGCTTTGGT
* *
52256197 CACGTATGTAGTACTATGTGAA
1 CACGTGTGTAGTACTGTGTGAA
52256219 CCGTAAAACT
Statistics
Matches: 201, Mismatches: 24, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
102 200 1.00
103 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
Found at i:52256262 original size:50 final size:49
Alignment explanation
Indices: 52256208--52256315 Score: 171
Period size: 50 Copynumber: 2.2 Consensus size: 49
52256198 ACGTATGTAG
* * *
52256208 TACTATGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
1 TACTACGTGAACCGTAAAACTTGATCACGTGTGTAATA-AATGTGAAGGC
*
52256258 TACTACGTGAACCGTAAAACTTGATCACGTGTGTAATAAATGTGAAGGT
1 TACTACGTGAACCGTAAAACTTGATCACGTGTGTAATAAATGTGAAGGC
52256307 TACTACGTG
1 TACTACGTG
52256316 TATCGAATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
49 18 0.33
50 36 0.67
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (49 bp):
TACTACGTGAACCGTAAAACTTGATCACGTGTGTAATAAATGTGAAGGC
Found at i:52273267 original size:11 final size:10
Alignment explanation
Indices: 52273231--52273273 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
52273221 TAACATGCTG
*
52273231 AATTTTATTT
1 AATTTTATTA
52273241 AATTTTATAATA
1 AATTTTAT--TA
52273253 AATTTTGATTA
1 AATTTT-ATTA
52273264 AATTTTATTA
1 AATTTTATTA
52273274 TTTTCGGCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 12 0.41
11 8 0.28
12 7 0.24
13 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTATTA
Found at i:52276867 original size:3 final size:3
Alignment explanation
Indices: 52276859--52276896 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
52276849 ATAATCCTTG
*
52276859 TTA TTA TTA TTA TTA TT- TATA TTA TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT
52276897 GTTAATGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:52276943 original size:18 final size:18
Alignment explanation
Indices: 52276920--52276960 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
52276910 CTGTTATAAT
*
52276920 TATTAGTATTATAA-TTTG
1 TATTAGT-TTATAAGTTTA
52276938 TATTAGTTTATAAGTTTA
1 TATTAGTTTATAAGTTTA
52276956 TATTA
1 TATTA
52276961 TTATCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TATTAGTTTATAAGTTTA
Found at i:52298900 original size:30 final size:31
Alignment explanation
Indices: 52298845--52298911 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
52298835 ACCCTTAAAA
* * **
52298845 TATTTACACTATTAGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
52298876 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
52298906 TATTTA
1 TATTTA
52298912 ATCTTGGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:52315463 original size:20 final size:19
Alignment explanation
Indices: 52315435--52315485 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
52315425 TATCAATTCA
52315435 AATATTAAAAAAATTAAAT
1 AATATTAAAAAAATTAAAT
* *
52315454 AATAATTAAAAAATTTATAT
1 AAT-ATTAAAAAAATTAAAT
*
52315474 CATATTAAAAAA
1 AATATTAAAAAA
52315486 TCGATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATTAAAAAAATTAAAT
Found at i:52315464 original size:19 final size:18
Alignment explanation
Indices: 52315435--52315486 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
52315425 TATCAATTCA
52315435 AATATTAAAAAAATTAAAT
1 AATATT-AAAAAATTAAAT
*
52315454 AATAATTAAAAAATTTATAT
1 AAT-ATTAAAAAA-TTAAAT
*
52315474 CATATTAAAAAAT
1 AATATTAAAAAAT
52315487 CGATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.62
20 10 0.34
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATTAAAAAATTAAAT
Found at i:52315982 original size:21 final size:22
Alignment explanation
Indices: 52315946--52315995 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
52315936 ACAAATCCTA
52315946 TCTCAAATTCCTTTCAAAATCC
1 TCTCAAATTCCTTTCAAAATCC
* *
52315968 TCTCAATTTCC-TTCAAAATTC
1 TCTCAAATTCCTTTCAAAATCC
52315989 TCTCAAA
1 TCTCAAA
52315996 CTCTCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAAATTCCTTTCAAAATCC
Found at i:52316005 original size:29 final size:30
Alignment explanation
Indices: 52315967--52316025 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
52315957 TTTCAAAATC
*
52315967 CTCTCAATTTCCTT-CAAAATTCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
52315996 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
52316026 TTTCTTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAA
Found at i:52316008 original size:51 final size:52
Alignment explanation
Indices: 52315946--52316047 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
52315936 ACAAATCCTA
* *
52315946 TCTCAAATTCCTTTCAAAATCCTCTC-AATTTCCTT-CAAAATTCTCTCAAAC
1 TCTCAAATTCCTTCCAAAATCCTCTCAAATTT-CTTCCAAAAATCTCTCAAAC
*
52315997 TCTCAATTTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTCAAA
1 TCTCAAATTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTCAAA
52316048 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 27 0.59
52 19 0.41
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.36
Consensus pattern (52 bp):
TCTCAAATTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTCAAAC
Found at i:52316025 original size:11 final size:11
Alignment explanation
Indices: 52315946--52316025 Score: 53
Period size: 11 Copynumber: 7.6 Consensus size: 11
52315936 ACAAATCCTA
*
52315946 TCTCAAATTCC
1 TCTCAAAATCC
*
52315957 TTTCAAAATCC
1 TCTCAAAATCC
**
52315968 TCTCAATTTCC
1 TCTCAAAATCC
*
52315979 T-TCAAAATTC
1 TCTCAAAATCC
52315989 TCTC-AAA--C
1 TCTCAAAATCC
**
52315997 TCTCAATTTCC
1 TCTCAAAATCC
52316008 T-TCCAAAATCC
1 TCT-CAAAATCC
52316019 TCTCAAA
1 TCTCAAA
52316026 TTTCTTCCAA
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
8 5 0.10
9 1 0.02
10 11 0.22
11 33 0.65
12 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (11 bp):
TCTCAAAATCC
Found at i:52316047 original size:22 final size:23
Alignment explanation
Indices: 52315996--52316048 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
52315986 TTCTCTCAAA
52315996 CTCTC-AATTTCCTTCCAAAATC
1 CTCTCAAATTTCCTTCCAAAATC
52316018 CTCTCAAATTT-CTTCCAAAAAT-
1 CTCTCAAATTTCCTTCC-AAAATC
52316040 CTCTCAAAT
1 CTCTCAAAT
52316049 CCATATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCCAAAATC
Found at i:52316118 original size:34 final size:31
Alignment explanation
Indices: 52316079--52316149 Score: 115
Period size: 34 Copynumber: 2.2 Consensus size: 31
52316069 CCCTCAATTT
52316079 TATTTTTTAAAAATAATTTTATATATTTTTTTTA
1 TATTTTTTAAAAATAATTTTA-A-A-TTTTTTTA
52316113 TATTTTTTAAAAATAATTTTAAATTTTTTTA
1 TATTTTTTAAAAATAATTTTAAATTTTTTTA
52316144 TATTTT
1 TATTTT
52316150 CATCAATAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
31 14 0.38
32 1 0.03
33 1 0.03
34 21 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TATTTTTTAAAAATAATTTTAAATTTTTTTA
Found at i:52318498 original size:29 final size:29
Alignment explanation
Indices: 52318455--52319374 Score: 1282
Period size: 29 Copynumber: 31.6 Consensus size: 29
52318445 ATAAAAAAAT
** * *
52318455 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318484 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318513 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318542 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318571 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318600 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
52318629 ATTAAAAGCCCTAACCCTAACTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
52318658 ATTAAAAACCCTAACCCTGACCTAATTTT
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
52318687 TTTAAAAACCCTAAACCCTAGCCTAATTTA
1 ATTAAAAACCCT-AACCCTAACCTAATTTA
* ** * *
52318717 TTTTTAAACCCTAAACTCTAACTTAATTTA
1 ATTAAAAACCCT-AACCCTAACCTAATTTA
52318747 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318776 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318805 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318834 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318863 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318892 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318921 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
** * *
52318950 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52318979 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* * * * *
52319008 TTTTAAAACCCTAAACTTAACTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
52319037 TTTTAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52319066 ATTAAAAACCCTAAACCCTAACCTAATTTA
1 ATTAAAAACCCT-AACCCTAACCTAATTTA
*
52319096 ATCAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52319125 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52319154 ATTAAAAACCCTAAACCCTAACCTAATTTA
1 ATTAAAAACCCT-AACCCTAACCTAATTTA
** * *
52319184 ATTAAAAACTTTAACTCTACCCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52319213 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
52319242 ATTAAAAACTCTAACCCTAACTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
*
52319271 ATTAAAAACCCTAACCCTAACCTAATGTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* * *
52319300 TTTTAAAACCCTAAACTCTAACCTAATTTA
1 ATTAAAAACCCT-AACCCTAACCTAATTTA
52319330 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
52319359 ATTAAAAACCCTAACC
1 ATTAAAAACCCTAACC
52319375 ATTAACAAAA
Statistics
Matches: 783, Mismatches: 104, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
29 655 0.84
30 128 0.16
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (29 bp):
ATTAAAAACCCTAACCCTAACCTAATTTA
Found at i:52322672 original size:124 final size:124
Alignment explanation
Indices: 52322452--52322726 Score: 471
Period size: 124 Copynumber: 2.2 Consensus size: 124
52322442 ACGAGGGCGT
* * *
52322452 GATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCGAA
1 GATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATCATTTCTTACATGACCAACTGTAACGAA
*
52322517 ATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
66 ATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
*
52322576 GATTTTATACTATTTTCTCAGAAACGTAAAAAAAAATCATTTCTTACATGACCAACTGTAACGAA
1 GATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATCATTTCTTACATGACCAACTGTAACGAA
* *
52322641 ATCGTGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGGAGC
66 ATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
52322700 GATTTTATACTATTTGAC-CAGAAACGT
1 GATTTTATACTATTTG-CTCAGAAACGT
52322727 CAACTCAAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
124 141 0.99
125 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
GATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATCATTTCTTACATGACCAACTGTAACGAA
ATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
Found at i:52324950 original size:27 final size:26
Alignment explanation
Indices: 52324910--52324960 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
52324900 TCATATTGGT
*
52324910 AAATAGAATGTGTAAGAAAATGTGATG
1 AAATAGAATATGTAAGAAAA-GTGATG
* *
52324937 AAATAGTATATGTATGAAAAGTGA
1 AAATAGAATATGTAAGAAAAGTGA
52324961 AAGAGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (26 bp):
AAATAGAATATGTAAGAAAAGTGATG
Found at i:52331403 original size:14 final size:14
Alignment explanation
Indices: 52331384--52331422 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
52331374 TACCACAGGC
52331384 GGATTGGTATTTGT
1 GGATTGGTATTTGT
52331398 GGATTGGTATTTGT
1 GGATTGGTATTTGT
52331412 GGATTGGTATT
1 GGATTGGTATT
52331423 CATTGTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (14 bp):
GGATTGGTATTTGT
Found at i:52334005 original size:11 final size:11
Alignment explanation
Indices: 52333976--52334015 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
52333966 TTGTTTTTAG
52333976 TTTAGTTTATA
1 TTTAGTTTATA
*
52333987 TTCAGTTTATA
1 TTTAGTTTATA
*
52333998 TTTTGTTT-TA
1 TTTAGTTTATA
52334008 TTTAGTTT
1 TTTAGTTT
52334016 GCTTGAGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.68
Consensus pattern (11 bp):
TTTAGTTTATA
Found at i:52337834 original size:27 final size:28
Alignment explanation
Indices: 52337777--52337830 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
52337767 TGACATCTAT
*
52337777 GAATAGCCTTTG-TGACGGACTCTGAAA
1 GAATAGCCTTTGTTGACGAACTCTGAAA
*
52337804 GAATAGCCTTTGTTG-TGAACT-TGAAA
1 GAATAGCCTTTGTTGACGAACTCTGAAA
52337830 G
1 G
52337831 GAATTCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 16 0.67
28 2 0.08
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
GAATAGCCTTTGTTGACGAACTCTGAAA
Found at i:52343153 original size:178 final size:178
Alignment explanation
Indices: 52342847--52343201 Score: 559
Period size: 178 Copynumber: 2.0 Consensus size: 178
52342837 CATTCCCAAC
*
52342847 ATCATTTCTTGATTCACCACACATTTTCAGCTATAAAATAGAAACATTTTATAATCAACATCAAA
1 ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
* * * * * *
52342912 ATCCTGACTCAACTCGAATTAACTTGGCATGTACCTTTAGACTTAATTCTGAACTTGATTTTAGT
66 ATCCAGACTCAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
* * *
52342977 CTAAGAATCGGCTAAACCAATAGCTCTGACACCATTAACTGTAACACT
131 CCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACACT
* * *
52343025 ATCATTTCTTGATTCACCATACATTTTCAACTATACAATAGAAACATTTTATAATCAACATCCAA
1 ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
*
52343090 ATCCCAG-CTTAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAG
66 AT-CCAGACTCAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAG
*
52343154 TCCAAGAATTAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
130 TCCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
52343202 CACATACCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
178 158 0.98
179 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (178 bp):
ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
ATCCAGACTCAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
CCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACACT
Found at i:52343772 original size:21 final size:20
Alignment explanation
Indices: 52343731--52343775 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
52343721 CCTTACCAAT
* *
52343731 CATAACTTAAACAACTAATG
1 CATAACTTAAAAAAATAATG
*
52343751 CATAACATTAAAAAAATTATG
1 CATAAC-TTAAAAAAATAATG
52343772 CATA
1 CATA
52343776 CATACCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (20 bp):
CATAACTTAAAAAAATAATG
Found at i:52350467 original size:39 final size:40
Alignment explanation
Indices: 52350366--52350589 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
52350356 TTGAATGATG
* *
52350366 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
52350405 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
52350446 TCCGGGCTAAG-CCCGAAGGCATTTTTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
52350485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
52350524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
52350563 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52350590 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
39 71 0.44
40 76 0.47
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:52350515 original size:78 final size:80
Alignment explanation
Indices: 52350366--52350589 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
52350356 TTGAATGATG
* * * * *
52350366 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
52350429 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* * *
52350446 TCCGGGCTAAG-CCCGAAGGCATTTTTGTGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
52350507 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
52350524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
52350589 G
66 G
52350590 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
78 37 0.30
79 53 0.43
80 32 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:52350611 original size:79 final size:79
Alignment explanation
Indices: 52350366--52350622 Score: 199
Period size: 79 Copynumber: 3.3 Consensus size: 79
52350356 TTGAATGATG
* * * * *
52350366 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
52350428 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * * *
52350446 TCCGGGCTAAG-CCCGAAGGCATTTTTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
52350510 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
52350524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
52350587 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
52350604 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52350623 TACGTGATTT
Statistics
Matches: 149, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 37 0.25
79 65 0.44
80 45 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:52358062 original size:85 final size:86
Alignment explanation
Indices: 52357918--52358088 Score: 317
Period size: 85 Copynumber: 2.0 Consensus size: 86
52357908 AGACATGCAT
*
52357918 ATTCGGCCAAGGGGGAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATTCCATACATATGTGA
1 ATTCGGCCAAGGGGGAAAAATTAGCCAAAATGTTGAGTTTGATTCATGATTCCATACATATGTGA
52357983 CTTTAATGTCTAATGTATAAA
66 CTTTAATGTCTAATGTATAAA
*
52358004 ATTCGGCCAAGGGGG-AAAATTAGCCAAAATGTTGAGTTTGATTCATGATTCCGTACATATGTGA
1 ATTCGGCCAAGGGGGAAAAATTAGCCAAAATGTTGAGTTTGATTCATGATTCCATACATATGTGA
52358068 CTTTAATGTCTAATGTATAAA
66 CTTTAATGTCTAATGTATAAA
52358089 TATGGGCTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 68 0.82
86 15 0.18
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (86 bp):
ATTCGGCCAAGGGGGAAAAATTAGCCAAAATGTTGAGTTTGATTCATGATTCCATACATATGTGA
CTTTAATGTCTAATGTATAAA
Found at i:52358537 original size:39 final size:40
Alignment explanation
Indices: 52358442--52358664 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
52358432 TTGAATGATG
* *
52358442 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
52358480 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
52358521 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* *
52358560 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52358599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* *
52358638 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
52358665 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:52358628 original size:79 final size:81
Alignment explanation
Indices: 52358442--52358664 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
52358432 TTGAATGATG
* * *
52358442 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
52358503 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
52358521 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
52358583 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * *
52358599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
52358663 TG
66 TG
52358665 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:52358695 original size:79 final size:79
Alignment explanation
Indices: 52358494--52358697 Score: 227
Period size: 79 Copynumber: 2.6 Consensus size: 79
52358484 GGACTAAGAT
** * * * *
52358494 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
52358558 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
52358572 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
52358636 ATAACCGGGCTATGAC
66 AT-ACCGGGCTAAG-C
* *
52358652 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
52358698 TACGTGAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 34 0.31
79 50 0.46
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:52358787 original size:109 final size:109
Alignment explanation
Indices: 52358596--52358811 Score: 387
Period size: 109 Copynumber: 2.0 Consensus size: 109
52358586 GCGAGTTACT
* *
52358596 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGACCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAAGCATTTGTGCGAATTACTATAACCGGGCTATGACCCGAAGGCA
*
52358661 TTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGA
66 TTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGA
* *
52358705 AAATCCGGGTTAAGTCCCGAAAGCATTTGTGCGAATTACTATAACCGGGCTATGTCTCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAAGCATTTGTGCGAATTACTATAACCGGGCTATGACCCGAAGGCA
52358770 TTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGT
66 TTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGT
52358812 AATTTGGGAA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 102 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (109 bp):
AAATCCGGGTTAAGTCCCGAAAGCATTTGTGCGAATTACTATAACCGGGCTATGACCCGAAGGCA
TTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGA
Found at i:52363749 original size:276 final size:276
Alignment explanation
Indices: 52363256--52363807 Score: 1104
Period size: 276 Copynumber: 2.0 Consensus size: 276
52363246 AAGTCTCAAA
52363256 AATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTA
1 AATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTA
52363321 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAAT
66 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAAT
52363386 CACTGTTTGCTTTGCGAGCAATGAATGTACACTTGTCTGTTCTACCTGACAATGTGTTAGTAGCT
131 CACTGTTTGCTTTGCGAGCAATGAATGTACACTTGTCTGTTCTACCTGACAATGTGTTAGTAGCT
52363451 GAATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAGTCGATGATGAATT
196 GAATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAGTCGATGATGAATT
52363516 GGTTGCAAAACGAGCT
261 GGTTGCAAAACGAGCT
52363532 AATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTA
1 AATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTA
52363597 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAAT
66 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAAT
52363662 CACTGTTTGCTTTGCGAGCAATGAATGTACACTTGTCTGTTCTACCTGACAATGTGTTAGTAGCT
131 CACTGTTTGCTTTGCGAGCAATGAATGTACACTTGTCTGTTCTACCTGACAATGTGTTAGTAGCT
52363727 GAATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAGTCGATGATGAATT
196 GAATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAGTCGATGATGAATT
52363792 GGTTGCAAAACGAGCT
261 GGTTGCAAAACGAGCT
52363808 GAGTGTGTTC
Statistics
Matches: 276, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
276 276 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (276 bp):
AATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTA
CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAAT
CACTGTTTGCTTTGCGAGCAATGAATGTACACTTGTCTGTTCTACCTGACAATGTGTTAGTAGCT
GAATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAGTCGATGATGAATT
GGTTGCAAAACGAGCT
Found at i:52368660 original size:27 final size:27
Alignment explanation
Indices: 52368630--52368808 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
52368620 ATATTGAGTC
* * * *
52368630 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52368657 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52368684 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52368712 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52368739 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52368766 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52368793 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
52368809 TACAATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
27 107 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:52368769 original size:82 final size:81
Alignment explanation
Indices: 52368651--52368806 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52368641 TGCTATATAA
* *
52368651 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52368716 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52368733 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52368797 CACTTAGTGC
65 CACTTAGTGC
52368807 TATACAATTT
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:52371799 original size:119 final size:120
Alignment explanation
Indices: 52371582--52371845 Score: 365
Period size: 119 Copynumber: 2.2 Consensus size: 120
52371572 TTGAATGATG
* * *
52371582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGACAATATCCGGACTAAGACCCGAAGGCATT
* *
52371646 TGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
52371701 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGAT-ACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGAC-AATATCCGGACTAAGACCCGAAGGCAT
* * *
52371763 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
65 TTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52371820 CCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52371846 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
118 35 0.27
119 81 0.63
120 12 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGACAATATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52371859 original size:40 final size:40
Alignment explanation
Indices: 52371582--52371845 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
52371572 TTGAATGATG
* * * *
52371582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
52371622 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52371661 TTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52371701 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
52371740 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
52371780 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52371820 CCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52371846 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
39 70 0.36
40 118 0.60
41 8 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:52371878 original size:79 final size:79
Alignment explanation
Indices: 52371582--52371845 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 79
52371572 TTGAATGATG
* * * * * **
52371582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
52371645 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAT
*
52371662 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
52371727 TGCGAGATACTAAT
66 TGCGAGATACTAAT
52371741 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
52371806 TGCGAGTTACT-AT
66 TGCGAGATACTAAT
* *
52371819 ACCCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
52371846 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
78 3 0.02
79 133 0.79
80 32 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:52373427 original size:39 final size:39
Alignment explanation
Indices: 52373383--52373463 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
52373373 ATTATATTAT
52373383 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
* *
52373422 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
52373461 CAG
1 CAG
52373464 TGTCTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:52375464 original size:10 final size:9
Alignment explanation
Indices: 52375449--52375475 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52375439 TAATACCGAG
52375449 TTTTTTTTA
1 TTTTTTTTA
52375458 TTTTTTTTA
1 TTTTTTTTA
52375467 TTTTTTTTA
1 TTTTTTTTA
52375476 ATAACAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:52376591 original size:5 final size:5
Alignment explanation
Indices: 52376581--52376678 Score: 83
Period size: 6 Copynumber: 18.2 Consensus size: 5
52376571 TACGTCTTTC
*
52376581 AAAAT AAAAT AATAAT AAAATT GAAAT AAAAAT CAAAAT CAAAAT AAAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT -AAAAT
*
52376632 AAAAAT AAAAT -AAAG AAAAT AAAAAT AAAA- ATAAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT
52376678 A
1 A
52376679 GGAGGATTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.05
5 35 0.44
6 41 0.51
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:52376613 original size:6 final size:6
Alignment explanation
Indices: 52376581--52376666 Score: 86
Period size: 6 Copynumber: 14.3 Consensus size: 6
52376571 TACGTCTTTC
* * * * *
52376581 AAAAT- AAAATA ATAAT- AAAATT GAAATA AAAATC AAAATC AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
52376627 AAAATA AAAATA AAATAAA GAAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAA-ATA -AAAATA AAAATA AAAATA AA
52376667 TAAAATAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.13
6 52 0.76
7 4 0.06
8 3 0.04
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:52376619 original size:12 final size:11
Alignment explanation
Indices: 52376581--52376676 Score: 92
Period size: 11 Copynumber: 8.8 Consensus size: 11
52376571 TACGTCTTTC
52376581 AAAAT-AAAAT
1 AAAATAAAAAT
*
52376591 AATAATAAAATT
1 AA-AATAAAAAT
*
52376603 GAAATAAAAAT
1 AAAATAAAAAT
*
52376614 CAAAATCAAAAT
1 -AAAATAAAAAT
52376626 AAAAATAAAAAT
1 -AAAATAAAAAT
*
52376638 AAAAT--AAAG
1 AAAATAAAAAT
52376647 AAAATAAAAAT
1 AAAATAAAAAT
*
52376658 AAAA-ATAAAT
1 AAAATAAAAAT
52376668 AAAATAAAA
1 AAAATAAAA
52376677 TAGGAGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.12
10 11 0.16
11 26 0.38
12 24 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:52376656 original size:21 final size:21
Alignment explanation
Indices: 52376604--52376676 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
52376594 AATAAAATTG
* *
52376604 AAATAAAAATCAAAATCAAAATAA
1 AAATAAAAATAAAAAT--AAA-GA
52376628 AAATAAAAAT-AAAATAAAGA
1 AAATAAAAATAAAAATAAAGA
*
52376648 AAATAAAAATAAAAATAAATA
1 AAATAAAAATAAAAATAAAGA
52376669 AAATAAAA
1 AAATAAAA
52376677 TAGGAGGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.24
21 20 0.43
23 5 0.11
24 10 0.22
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.16
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAGA
Found at i:52385552 original size:40 final size:40
Alignment explanation
Indices: 52385497--52385720 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
52385487 TATTCGGATG
52385497 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
52385537 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
52385580 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
52385620 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
52385660 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
52385700 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52385721 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:52385640 original size:83 final size:80
Alignment explanation
Indices: 52385501--52385720 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
52385491 CGGATGATAT
* **
52385501 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
52385566 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
52385584 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
52385649 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
52385664 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
52385721 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:52394117 original size:47 final size:47
Alignment explanation
Indices: 52394041--52394171 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
52394031 CTTCGGGACT
* * * * *
52394041 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
52394088 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
52394135 TATCACATATATACACTTTCACATTCATCACATCGGC
1 TATCACATATATACACTTTCACATTCATCACATCGGC
52394172 NNNNNNNNNN
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:52397340 original size:15 final size:15
Alignment explanation
Indices: 52397320--52397349 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52397310 ACAAACAGAT
52397320 GTCTTCATTTAAGCC
1 GTCTTCATTTAAGCC
52397335 GTCTTCATTTAAGCC
1 GTCTTCATTTAAGCC
52397350 ATTTTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
GTCTTCATTTAAGCC
Found at i:52402096 original size:43 final size:42
Alignment explanation
Indices: 52402049--52402172 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
52402039 TCCCAGACGT
* * *
52402049 GGTCTTACAT-ATAATCAAATATCGATGCCACTTTCCCAAATAG
1 GGTCTTACATGA-AATCAAATA-CGATGCCAATGTCCCAAACAG
* *
52402092 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
** *
52402134 GGTCTTACATGTAAATCATAAGCCGATGCCAACGTCCCA
1 GGTCTTACATG-AAATCA-AATACGATGCCAATGTCCCA
52402173 GACGTGGTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.39
43 25 0.36
44 18 0.26
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
Found at i:52403304 original size:13 final size:13
Alignment explanation
Indices: 52403286--52403310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52403276 CACAAACGAT
52403286 AAAATTTTCACAC
1 AAAATTTTCACAC
52403299 AAAATTTTCACA
1 AAAATTTTCACA
52403311 GACATTAATT
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:52417636 original size:28 final size:29
Alignment explanation
Indices: 52417559--52417645 Score: 140
Period size: 29 Copynumber: 3.0 Consensus size: 29
52417549 TGGCCTATCT
52417559 CATTCATATGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
*
52417588 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* *
52417617 -ATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
52417645 C
1 C
52417646 CTTTATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 25 0.47
29 28 0.53
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAATTCA
Found at i:52417666 original size:57 final size:57
Alignment explanation
Indices: 52417560--52417669 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
52417550 GGCCTATCTC
* **
52417560 ATTCATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATCAGGCCCAATTCA
1 ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAATTCA
* * * * * *
52417617 ATTCATATGGCCTATTAGGCCCAAATCACCTTTATAAATCCCGTTAGGCCCAA
1 ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAA
52417670 ATCACCTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (57 bp):
ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAATTCA
Found at i:52422084 original size:28 final size:29
Alignment explanation
Indices: 52421935--52422069 Score: 136
Period size: 29 Copynumber: 4.8 Consensus size: 29
52421925 ACCCCTACGT
*
52421935 ACATGCATATGGCCCACTT-GGCCC-A-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
52421962 -TATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
52421990 ACATTCATATGGCCCATTAGGTCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * **
52422019 ATATTCATAT-GCCTATTAGGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
52422047 ACCTTTATATGGCCCATTAGGCC
1 ACATTCATATGGCCCATTAGGCC
52422070 TAGATCACCT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 18 0.20
27 1 0.01
28 23 0.26
29 45 0.51
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:52423467 original size:17 final size:17
Alignment explanation
Indices: 52423431--52423466 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
52423421 ACTAAAAAAA
*
52423431 TTTGGGATTTCGGGATT
1 TTTGGGATTTCAGGATT
52423448 TTTGGG-TTTCAGGATT
1 TTTGGGATTTCAGGATT
52423464 TTT
1 TTT
52423467 TTTGGGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.06, G:0.31, T:0.53
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:52425255 original size:43 final size:42
Alignment explanation
Indices: 52425174--52425257 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
52425164 AAATCGTACA
*
52425174 ATGCCAATGTCCCAACGTGGTCTTACATGTAGCTACATATCG
1 ATGCCAATGTCCCAACGTGGTCTTACATGTAACTACATATCG
* *
52425216 ATGCCACTGTCCCAGACAG-GGTCTTACTTGTAAAC-ACATATC
1 ATGCCAATGTCCCA-AC-GTGGTCTTACATGT-AACTACATATC
52425258 AGAAGCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 13 0.36
43 20 0.56
44 3 0.08
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAACGTGGTCTTACATGTAACTACATATCG
Found at i:52428656 original size:53 final size:54
Alignment explanation
Indices: 52428575--52428782 Score: 206
Period size: 53 Copynumber: 3.9 Consensus size: 54
52428565 TTTTCTTTTT
* * ** *
52428575 GAACTTACCATTGCTATGTTTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
52428628 GAACTTACCAATGCTATGCCTTGGCATGGTCTTACATGAG-A-CCTTTTCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCCTTATA
* * * * * *
52428682 GTAACTCATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
52428737 GAACTTATCAATGCCATGCCTTGGCATGGTCTTGCATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
52428783 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 41 0.32
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:52428775 original size:54 final size:54
Alignment explanation
Indices: 52428599--52428782 Score: 228
Period size: 55 Copynumber: 3.4 Consensus size: 54
52428589 TATGTTTTGA
* * * *
52428599 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTTACCAATGCTATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
* * * * * *
52428652 CATGGTCTTACATGAGA-CCTTTTCCTTATAGTAACTCATCAATACCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATGCCATGCCTTGG
*
52428707 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
*
52428761 CATGGTCTTGCATGATATCCTT
1 CATGGTCTTACATGATATCCTT
52428783 ATCTTACCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 22 0.20
54 40 0.37
55 42 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
Found at i:52429578 original size:31 final size:30
Alignment explanation
Indices: 52429543--52429600 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
52429533 AAAACTCAAA
52429543 CTTTGGAAAAATTACAATTTTGCCCCTAAAC
1 CTTT-GAAAAATTACAATTTTGCCCCTAAAC
*
52429574 CTTTGCAAAATTACAATTTTGCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
52429601 GGATCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:52435971 original size:25 final size:25
Alignment explanation
Indices: 52435919--52435976 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
52435909 ATAAAACCTA
*
52435919 AAAATGAAATAGTATTAAACGAAAAT
1 AAAAT-AAAAAGTATTAAACGAAAAT
*
52435945 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAACGAAAAT
52435970 -AAATAAA
1 AAAATAAA
52435977 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAACGAAAAT
Found at i:52443281 original size:24 final size:25
Alignment explanation
Indices: 52443254--52443332 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 25
52443244 CACTCGGCGA
*
52443254 TGGTGGTACATCCTCATGTGGA-TG
1 TGGTGGTACATCATCATGTGGACTG
* *
52443278 TGGTAGTACAACATCATGT-GACTG
1 TGGTGGTACATCATCATGTGGACTG
* *
52443302 TGGTGGTACATCTTCATGT-GACTA
1 TGGTGGTACATCATCATGTGGACTG
52443326 TGGTGGT
1 TGGTGGT
52443333 GTCAGCATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.04
24 45 0.96
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.34
Consensus pattern (25 bp):
TGGTGGTACATCATCATGTGGACTG
Found at i:52447466 original size:9 final size:9
Alignment explanation
Indices: 52447448--52447636 Score: 234
Period size: 9 Copynumber: 20.6 Consensus size: 9
52447438 TATTTATGTA
52447448 TTATGTAAG
1 TTATGTAAG
*
52447457 TTATGCAAG
1 TTATGTAAG
*
52447466 TCATGTAAG
1 TTATGTAAG
*
52447475 TTATGATATATAT
1 TTATG---TA-AG
52447488 TTATGTAAG
1 TTATGTAAG
52447497 TTATGTAAG
1 TTATGTAAG
*
52447506 CTATGTAAG
1 TTATGTAAG
*
52447515 TTATGGAAG
1 TTATGTAAG
52447524 TTATGTAAG
1 TTATGTAAG
*
52447533 CTATGTAAG
1 TTATGTAAG
*
52447542 TTATATAAG
1 TTATGTAAG
52447551 TTATGTAAG
1 TTATGTAAG
*
52447560 TTATATAAG
1 TTATGTAAG
52447569 TTATGTAAG
1 TTATGTAAG
52447578 TTATGTAAG
1 TTATGTAAG
*
52447587 CTATGTAAG
1 TTATGTAAG
*
52447596 TTTTGTAAG
1 TTATGTAAG
*
52447605 TTATATAAG
1 TTATGTAAG
*
52447614 CTATGTAAG
1 TTATGTAAG
52447623 TTATGTAAG
1 TTATGTAAG
52447632 TTATG
1 TTATG
52447637 GTTATATTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
9 142 0.93
10 2 0.01
12 2 0.01
13 6 0.04
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (9 bp):
TTATGTAAG
Found at i:52450212 original size:28 final size:28
Alignment explanation
Indices: 52450172--52450533 Score: 670
Period size: 28 Copynumber: 12.9 Consensus size: 28
52450162 TAAATTGCTC
*
52450172 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
*
52450200 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
*
52450228 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
*
52450256 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
*
52450284 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450312 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450340 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450368 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450396 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450424 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450452 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
52450480 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAATTTGATTATGT
*
52450508 AGCACTAAGTGTGCGAGTTTGATTAT
1 AGCACTAAGTGTGCGAATTTGATTAT
52450534 NNNNNNNNNN
Statistics
Matches: 332, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 332 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTTGATTATGT
Found at i:52465060 original size:18 final size:19
Alignment explanation
Indices: 52465028--52465063 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52465018 CTATTCATTC
*
52465028 TGTCATTCTTTTCTTTTTT
1 TGTCATTCTTCTCTTTTTT
52465047 TGTC-TTCTTCTCTTTTT
1 TGTCATTCTTCTCTTTTT
52465064 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.19, G:0.06, T:0.72
Consensus pattern (19 bp):
TGTCATTCTTCTCTTTTTT
Found at i:52468113 original size:16 final size:16
Alignment explanation
Indices: 52468092--52468134 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
52468082 GTAGATCGGC
*
52468092 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
52468108 AAAAGCCGAAAAGTTG
1 AAAAGCCGAAAAGCTG
*
52468124 AAAAGCTGAAA
1 AAAAGCCGAAA
52468135 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:52468118 original size:8 final size:8
Alignment explanation
Indices: 52468092--52468134 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
52468082 GTAGATCGGC
*
52468092 AAAAGCCG
1 AAAAGCTG
*
52468100 AAATGCTG
1 AAAAGCTG
*
52468108 AAAAGCCG
1 AAAAGCTG
*
52468116 AAAAGTTG
1 AAAAGCTG
52468124 AAAAGCTG
1 AAAAGCTG
52468132 AAA
1 AAA
52468135 GTTTGGCTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (8 bp):
AAAAGCTG
Found at i:52468176 original size:19 final size:19
Alignment explanation
Indices: 52468154--52468191 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52468144 TGGTAGTCTT
*
52468154 GCGAGTGCATGGACTTTGG
1 GCGAGTCCATGGACTTTGG
*
52468173 GCGATTCCATGGACTTTGG
1 GCGAGTCCATGGACTTTGG
52468192 TTGTGAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (19 bp):
GCGAGTCCATGGACTTTGG
Found at i:52468342 original size:28 final size:28
Alignment explanation
Indices: 52468311--52468457 Score: 138
Period size: 28 Copynumber: 5.1 Consensus size: 28
52468301 GTGAGCATGA
52468311 ATAT-AATGTGATTTGGGCTGGATGGGCC
1 ATATAAATGTGATTTGGGCT-GATGGGCC
* *
52468339 ATATAAATGAGA-TTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGG-CTGATGGGCC
* **
52468367 ATATAAAGGTGATTTGACCCTGATGGGCC
1 ATATAAATGTGATTTG-GGCTGATGGGCC
*
52468396 ATATGAAATGTGAATTGGGGCTGATGGGCC
1 ATAT-AAATGTG-ATTTGGGCTGATGGGCC
* **
52468426 ATATAAATGAGA-TTGGGCCAAGTGGGCC
1 ATATAAATGTGATTTGGGCTGA-TGGGCC
52468454 ATAT
1 ATAT
52468458 GCATGTATGT
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
27 6 0.06
28 37 0.38
29 30 0.31
30 20 0.21
31 4 0.04
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTGATGGGCC
Found at i:52476672 original size:22 final size:21
Alignment explanation
Indices: 52476647--52476709 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
52476637 GTAACTACGT
52476647 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
*
52476669 TTGGCACAGAACCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
52476691 TTGGCGCAAAGCCATAATC
1 TTGGCACAAA-CCATAATC
52476710 GGAATAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 28 0.82
23 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:52477181 original size:27 final size:27
Alignment explanation
Indices: 52477150--52477499 Score: 227
Period size: 27 Copynumber: 13.0 Consensus size: 27
52477140 TTGATAAATC
*
52477150 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
52477177 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
52477204 TTGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * * * *
52477232 TGTAAATTAGGGGTATTTCTGTAAATT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * **
52477259 TCCAAATTAATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
**
52477286 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * ** * *
52477313 TGCAAGTTGAGGATATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
52477340 TATAAGTCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * *
52477367 TGCAAGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* ** * * **
52477394 TATAGGTCGATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
52477421 TACAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
52477448 T-GTATTCCAAGGGTATTT-AGTAATTT
1 TACAAAT-CAAGGGTATTTCAGTAATTT
** *
52477474 TGTAAACCAAGGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCAGTAATT
52477500 CTACCCTACA
Statistics
Matches: 260, Mismatches: 59, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
26 21 0.08
27 216 0.83
28 23 0.09
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:52477293 original size:54 final size:54
Alignment explanation
Indices: 52477152--52477499 Score: 261
Period size: 54 Copynumber: 6.4 Consensus size: 54
52477142 GATAAATCTA
* * * * *
52477152 CAAACCAAGGGTATTTCAGTAATTTTACAAACCAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAA-TTTTG
* ** * * * * *
52477207 -AAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTAAATTTC
1 CAAA-TCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * **
52477261 CAAATTAATGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* ** * * *
52477315 CAAGTTGAGGATATTTCGGTAATTTTATAAGTCAAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * ** * * ** *
52477369 CAAGTCGAGGGTATTTCGGTAATTTTATAGGTCGATGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * ** *
52477423 CAAATTAGGGGTATTTTGGTAATTTT-GTATTCCAAGGGTATTT-AGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCAGTAATTTTG
* * *
52477476 TAAACCAAGGGTATTTCAGTAATT
1 CAAATCAAGGGTATTTCGGTAATT
52477500 CTACCCTACA
Statistics
Matches: 233, Mismatches: 57, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
53 27 0.12
54 166 0.71
55 40 0.17
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
Found at i:52477475 original size:26 final size:26
Alignment explanation
Indices: 52477431--52477499 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
52477421 TACAAATTAG
* **
52477431 GGGTATTTTGGTAATTTTGTATTCCAA
1 GGGTA-TTTAGTAATTTTGTAAACCAA
52477458 GGGTATTTAGTAATTTTGTAAACCAA
1 GGGTATTTAGTAATTTTGTAAACCAA
52477484 GGGTATTTCAGTAATT
1 GGGTATTT-AGTAATT
52477500 CTACCCTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.68
27 12 0.32
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTGTAAACCAA
Found at i:52477511 original size:27 final size:27
Alignment explanation
Indices: 52477481--52477564 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
52477471 TTTTGTAAAC
52477481 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
52477508 CAAGAGCATTTCAGTAATTCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
52477535 CAGGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
52477562 CAA
1 CAA
52477565 ATATGATATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:52477900 original size:47 final size:47
Alignment explanation
Indices: 52477826--52477927 Score: 186
Period size: 47 Copynumber: 2.1 Consensus size: 47
52477816 TACACACTTG
52477826 TTTACAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTA-AAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
*
52477874 TTTAAAGAACGTGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTAAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
52477921 TTTAAAG
1 TTTAAAG
52477928 CTAGCTTCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 49 0.92
48 4 0.08
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (47 bp):
TTTAAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
Found at i:52478544 original size:15 final size:15
Alignment explanation
Indices: 52478521--52478551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52478511 TTATGGACCC
52478521 ATACGTCTAGGCCCA
1 ATACGTCTAGGCCCA
*
52478536 ATACTTCTAGGCCCA
1 ATACGTCTAGGCCCA
52478551 A
1 A
52478552 ATTTGGGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (15 bp):
ATACGTCTAGGCCCA
Found at i:52479631 original size:43 final size:43
Alignment explanation
Indices: 52479552--52479634 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
52479542 ATCGTACAAC
**
52479552 GCCAATGTCCCAGACGTGGTCTTACATGTAGCCACATATCAAT
1 GCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCAAT
*
52479595 GCCACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATC
1 GCCAATGTCCCAGAC-GTGGTCTTACAT-GTAAACACATATC
52479635 GGAACCACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCAAT
Done.