Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 167 of 295
Found at i:52754344 original size:12 final size:13
Alignment explanation
Indices: 52754316--52754348 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52754306 TTATTTCTTT
52754316 TTCTCCATCTACC
1 TTCTCCATCTACC
*
52754329 TTCTCC-TCTTCC
1 TTCTCCATCTACC
52754341 TTCTCCAT
1 TTCTCCAT
52754349 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:52755448 original size:28 final size:28
Alignment explanation
Indices: 52755416--52755536 Score: 206
Period size: 28 Copynumber: 4.3 Consensus size: 28
52755406 ATTTACTAGA
52755416 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
52755444 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
52755472 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
** * *
52755500 ATACCCCTATGCGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
52755528 ATACCCCTA
1 ATACCCCTA
52755537 GGGTTAATTT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:52755700 original size:27 final size:27
Alignment explanation
Indices: 52755652--52755723 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
52755642 CTGGTGGCTA
*
52755652 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAA-TATCTGTTCTAGTGGCAC
*
52755680 TGCCACATATATCTGTTCTAGTGGCAC
1 TGCCACAAATATCTGTTCTAGTGGCAC
*
52755707 AGCCACAAAATATCTGT
1 TGCCAC-AAATATCTGT
52755724 ATCTGGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTAGTGGCAC
Found at i:52759139 original size:45 final size:45
Alignment explanation
Indices: 52759071--52759236 Score: 260
Period size: 45 Copynumber: 3.7 Consensus size: 45
52759061 TATCGTACAG
* *
52759071 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGTCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATGATGCCGGTGAAA
* *
52759116 TACTATTCGGGCCTTCGATCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATGATGCCGGTGAAA
* * *
52759161 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATGATGCCGGTGAAA
*
52759206 TACTATTCGCGCCTTCGAGCCTAGCAAGCTA
1 TACTATTCGGGCCTTCGAGCCTAGCAAGCTA
52759237 AATGCCAGTG
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAAGCTATGATGCCGGTGAAA
Found at i:52760230 original size:29 final size:30
Alignment explanation
Indices: 52760179--52760241 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
52760169 TACAAGTGGG
52760179 GCCCGTGTGTCACACACGACCTAGGCATAC
1 GCCCGTGTGTCACACACGACCTAGGCATAC
*
52760209 GCCCGTGTG-CACACACGGCCTAGGCATAC
1 GCCCGTGTGTCACACACGACCTAGGCATAC
52760238 GCCC
1 GCCC
52760242 ATGTACCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.21, C:0.40, G:0.25, T:0.14
Consensus pattern (30 bp):
GCCCGTGTGTCACACACGACCTAGGCATAC
Found at i:52787206 original size:30 final size:30
Alignment explanation
Indices: 52787146--52787207 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
52787136 AATCGAAAAT
**
52787146 TTTGGCACTAAATGTGTTATTGAAACTAGC
1 TTTGGCACTAAATGTGCGATTGAAACTAGC
* * *
52787176 TTTGGCACTAAGTGTGCGATTTAAATTAGC
1 TTTGGCACTAAATGTGCGATTGAAACTAGC
52787206 TT
1 TT
52787208 CGGCTACTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (30 bp):
TTTGGCACTAAATGTGCGATTGAAACTAGC
Found at i:52790054 original size:28 final size:28
Alignment explanation
Indices: 52790022--52790136 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
52790012 TACCTATATC
* *
52790022 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
52790050 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* * *
52790079 TAGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* *
52790108 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
52790136 T
1 T
52790137 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 27 0.38
29 44 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:52795017 original size:29 final size:28
Alignment explanation
Indices: 52794985--52795069 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 28
52794975 CATTAAGCCC
* *
52794985 AATCATATTCATATGGCCCACTAGGCCAA
1 AATCACATT-ATATGGCCCATTAGGCCAA
* * *
52795014 AATCACCTGTATATGGCCCATTAGGTCTA
1 AATCACAT-TATATGGCCCATTAGGCCAA
52795043 AATCACATTTATATGGCCCATTAGGCC
1 AATCACA-TTATATGGCCCATTAGGCC
52795070 TAGTCACATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 45 0.96
30 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
AATCACATTATATGGCCCATTAGGCCAA
Found at i:52795024 original size:57 final size:58
Alignment explanation
Indices: 52794961--52795069 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
52794951 AATTTCACAT
* * *
52794961 ACCTGTATCTGACCCATTAAG-CCCAATCATATTCATATGGCCCACTAGGCCAAAATC
1 ACCTGTATATGACCCATTAAGTCCAAATCACATTCATATGGCCCACTAGGCCAAAATC
* * * * *
52795018 ACCTGTATATGGCCCATTAGGTCTAAATCACATTTATATGGCCCATTAGGCC
1 ACCTGTATATGACCCATTAAGTCCAAATCACATTCATATGGCCCACTAGGCC
52795070 TAGTCACATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 18 0.42
58 25 0.58
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGACCCATTAAGTCCAAATCACATTCATATGGCCCACTAGGCCAAAATC
Found at i:52795165 original size:17 final size:18
Alignment explanation
Indices: 52795143--52795176 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52795133 TGCCTAGTAT
52795143 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
52795160 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
52795177 TCCAGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:52796369 original size:16 final size:16
Alignment explanation
Indices: 52796348--52796379 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52796338 AAGTTCAGGA
52796348 TTTCGGGACTTTTGGG
1 TTTCGGGACTTTTGGG
*
52796364 TTTCGGGATTTTTGGG
1 TTTCGGGACTTTTGGG
52796380 GTGTTACAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.09, G:0.38, T:0.47
Consensus pattern (16 bp):
TTTCGGGACTTTTGGG
Found at i:52801693 original size:12 final size:12
Alignment explanation
Indices: 52801676--52801716 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
52801666 CTCTCGTTTC
*
52801676 TTTTCACTCACT
1 TTTTCACACACT
52801688 TTTTCACACACT
1 TTTTCACACACT
*
52801700 TTTTCACACACC
1 TTTTCACACACT
52801712 TTTTC
1 TTTTC
52801717 GCTCTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTTCACACACT
Found at i:52805151 original size:65 final size:65
Alignment explanation
Indices: 52805047--52805176 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
52805037 TAGCCTGCAC
*
52805047 TTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACATTTAGTACTACACACGT
1 TTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGT
*
52805112 TTAGTACTATACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGT
1 TTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGT
52805177 GACCTCACCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (65 bp):
TTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGT
Found at i:52807471 original size:15 final size:15
Alignment explanation
Indices: 52807415--52807479 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
52807405 TAAAGATAAC
* *
52807415 AAGAAAACC-GAATG
1 AAGAAATCCAGAATA
52807429 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
52807444 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
52807459 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
52807474 AAGAAA
1 AAGAAA
52807480 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 28 0.67
16 3 0.07
ACGTcount: A:0.62, C:0.14, G:0.15, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52807481 original size:30 final size:31
Alignment explanation
Indices: 52807415--52807483 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
52807405 TAAAGATAAC
* *
52807415 AAGAAAACC-GAATGAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
52807445 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
52807474 AAGAAACCCA
1 AAGAAACCCA
52807484 AGATACGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:52810551 original size:49 final size:49
Alignment explanation
Indices: 52810487--52810676 Score: 179
Period size: 51 Copynumber: 3.8 Consensus size: 49
52810477 GCCGAAGCTA
* * *
52810487 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCAACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAATCAACAG
* * *
52810536 TCTGGTACACGTAGTAGCCTGCATTTAGTACTACACAAATG-ACATCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACAC--ATGCA-ATCAACAG
** * * **
52810586 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAATCAACAG
* *
52810634 TTTTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 -TCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACATGC
52810677 GACCTCACAA
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
47 2 0.02
48 5 0.04
49 36 0.31
50 34 0.29
51 39 0.34
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAATCAACAG
Found at i:52810616 original size:50 final size:50
Alignment explanation
Indices: 52810498--52810622 Score: 166
Period size: 50 Copynumber: 2.5 Consensus size: 50
52810488 CTGGTACGCA
**
52810498 TAGTAGCCTGCATTTAGTACTACAC-ATGCAACCAACAGTCTGGTACACG
1 TAGTAGCCTGCATTTAGTACTACACAATGCAACCAACAGTCTAATACACG
* *
52810547 TAGTAGCCTGCATTTAGTACTACACAAATG-ACATCACCA-TCTAATACACG
1 TAGTAGCCTGCATTTAGTACTACAC-AATGCA-ACCAACAGTCTAATACACG
*
52810597 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCATTTAGTACTACACA
52810623 CGTGATCACA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
49 26 0.38
50 34 0.50
51 8 0.12
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCATTTAGTACTACACAATGCAACCAACAGTCTAATACACG
Found at i:52817167 original size:42 final size:43
Alignment explanation
Indices: 52817073--52817229 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 43
52817063 CGGGTACAAT
* * *
52817073 GCCGATGTCCTAGACATGGTCTTACATGTAATTCAGTATCGAT
1 GCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGAA
** * *
52817116 GCCTCTGTCCCAAACAGGGTCTTACACG-AATTCAGATAT-GAA
1 GCCGATGTCCCAGACATGGTCTTACACGTAATTCAG-TATCGAA
* *
52817158 GCCGATGTCCCAGACATGGTCTTACACGTAAATCTCA-AATCGAG
1 GCCGATGTCCCAGACATGGTCTTACACGT-AAT-TCAGTATCGAA
**
52817202 GCCTG-TGTCCCAGACACAGTCTTACACG
1 GCC-GATGTCCCAGACATGGTCTTACACG
52817230 ATATCTCAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 33 0.35
43 27 0.29
44 29 0.31
45 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
GCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGAA
Found at i:52819615 original size:8 final size:8
Alignment explanation
Indices: 52819602--52819626 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52819592 TTATCAGCTC
52819602 TTATTATT
1 TTATTATT
52819610 TTATTATT
1 TTATTATT
52819618 TTATTATT
1 TTATTATT
52819626 T
1 T
52819627 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:52821933 original size:16 final size:17
Alignment explanation
Indices: 52821901--52821933 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52821891 CTACTCATGA
52821901 GTCTATAGATGCACATT
1 GTCTATAGATGCACATT
*
52821918 GTCTATATAT-CACATT
1 GTCTATAGATGCACATT
52821934 TTAAGGAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
GTCTATAGATGCACATT
Found at i:52822568 original size:20 final size:20
Alignment explanation
Indices: 52822540--52822577 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52822530 TAAGGATTTG
* *
52822540 TTTTGGTAAATTTTTAGATA
1 TTTTAGTAAAGTTTTAGATA
52822560 TTTTAGTAAAGTTTTAGA
1 TTTTAGTAAAGTTTTAGA
52822578 AATAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTTAGTAAAGTTTTAGATA
Found at i:52823976 original size:22 final size:22
Alignment explanation
Indices: 52823950--52824004 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
52823940 ATACATGATT
*
52823950 AATTTTATTGAACTACCTATAA
1 AATTTTATTGAAATACCTATAA
*
52823972 CATTTTATTGAAATACCTATAA
1 AATTTTATTGAAATACCTATAA
52823994 AATTTTATTGA
1 AATTTTATTGA
52824005 TAATTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (22 bp):
AATTTTATTGAAATACCTATAA
Found at i:52830226 original size:27 final size:27
Alignment explanation
Indices: 52830196--52830372 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
52830186 ATATTGAGTC
* * * *
52830196 CGCACACTCAGTGCCATATAATCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* * *
52830223 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
*
52830250 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCCACATAGTCAAA-T
* * *
52830278 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
* **
52830305 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
*
52830332 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
52830359 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52830373 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:52830335 original size:82 final size:81
Alignment explanation
Indices: 52830217--52830372 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52830207 TGCCATATAA
* *
52830217 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52830282 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52830299 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52830363 CACTTAGTGC
65 CACTTAGTGC
52830373 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52836454 original size:39 final size:38
Alignment explanation
Indices: 52836427--52836585 Score: 228
Period size: 39 Copynumber: 4.1 Consensus size: 38
52836417 TGTCCAGCAC
* *
52836427 ATAGCCTGCAGACCTAAAGTCCGGATATTATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATA-TATTCTCGCAT
*
52836466 ATAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATAT-ATTCTCGCAT
* *
52836505 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCACTT
1 ATAGCCTGCGGACCTGAAGTCCGGATAT-ATTCTCGCAT
*
52836544 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATAT-ATTCTCGCAT
52836583 ATA
1 ATA
52836586 TATATTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 109 0.99
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (38 bp):
ATAGCCTGCGGACCTGAAGTCCGGATATATTCTCGCAT
Found at i:52836509 original size:78 final size:78
Alignment explanation
Indices: 52836427--52836585 Score: 255
Period size: 78 Copynumber: 2.0 Consensus size: 78
52836417 TGTCCAGCAC
* * *
52836427 ATAGCCTGCAGACCTAAAGTCCGGATATTATTCTCGCATATAGCCTGCGGACATGAAGTCCGGAT
1 ATAGCCTGCAGACCTAAAGTCCGGATATAATTCTCACATATAGCCTACGGACATGAAGTCCGGAT
52836492 ATAATTCTCGCAT
66 ATAATTCTCGCAT
* * * *
52836505 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCACTTATAGCCTACGGACCTGAAGTCCGGAT
1 ATAGCCTGCAGACCTAAAGTCCGGATATAATTCTCACATATAGCCTACGGACATGAAGTCCGGAT
52836570 ATAATTCTCGCAT
66 ATAATTCTCGCAT
52836583 ATA
1 ATA
52836586 TATATTTACA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (78 bp):
ATAGCCTGCAGACCTAAAGTCCGGATATAATTCTCACATATAGCCTACGGACATGAAGTCCGGAT
ATAATTCTCGCAT
Found at i:52839836 original size:20 final size:20
Alignment explanation
Indices: 52839813--52839850 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52839803 AATAATTTTT
52839813 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
*
52839833 AAAATTTAAAATATTTAT
1 AAAATTCAAAATATTTAT
52839851 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:52839857 original size:24 final size:24
Alignment explanation
Indices: 52839824--52839873 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
52839814 AAATTCAAAA
*
52839824 TATTTATAAAAAATTTA-AAATATT
1 TATTTATAAAAAAATTATAAAT-TT
*
52839848 TATTTTTAAAAAAATTATAAATTT
1 TATTTATAAAAAAATTATAAATTT
52839872 TA
1 TA
52839874 AAAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTTATAAAAAAATTATAAATTT
Found at i:52841723 original size:28 final size:29
Alignment explanation
Indices: 52841691--52841790 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
52841681 ATAGTAAGTC
* * *
52841691 CGCACACTTAGTGTTATATAA-TCGAACT
1 CGCACACTTAGTGCTATACAACTTGAACT
*
52841719 CGCACACTTAGTGCTATACAACTTGAAAAT
1 CGCACACTTAGTGCTATACAACTTG-AACT
* *
52841749 -GCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATACAACTTGAACT
*
52841777 CGCACATTTAGTGC
1 CGCACACTTAGTGC
52841791 CAATTTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.34
29 37 0.61
30 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAACTTGAACT
Found at i:52849644 original size:28 final size:29
Alignment explanation
Indices: 52849609--52849709 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
52849599 TATAGTAAGT
* * *
52849609 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
* *
52849637 TCACACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
52849666 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
52849695 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
52849710 CAATTTCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:52855046 original size:20 final size:20
Alignment explanation
Indices: 52855021--52855067 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
52855011 TGCCCACATT
*
52855021 GGCGTGTCCCAAACCATACG
1 GGCGTGTCCCAAACCACACG
*
52855041 GGCGTGTCCCAAACTACACG
1 GGCGTGTCCCAAACCACACG
52855061 GGCGTGT
1 GGCGTGT
52855068 GACCCTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (20 bp):
GGCGTGTCCCAAACCACACG
Found at i:52869116 original size:27 final size:26
Alignment explanation
Indices: 52869072--52869123 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52869062 CTCGCTGCAA
*
52869072 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
52869099 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
52869124 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:52871954 original size:42 final size:42
Alignment explanation
Indices: 52871906--52872025 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 42
52871896 ATTAGGGTTA
* *
52871906 ATGAGACTACGTGTAAGACTATATCTGGGATATGACATCGAT
1 ATGAGACTACATGTAAGACCATATCTGGGATATGACATCGAT
* * * *
52871948 ATGAGACTTCATGTAAGACCATAGCTGGGCTATTGGCATCGAT
1 ATGAGACTACATGTAAGACCATATCTGGGATA-TGACATCGAT
* *
52871991 ATGAGATTACATGTAAGACCATATTTGGGATATGA
1 ATGAGACTACATGTAAGACCATATCTGGGATATGA
52872026 AATTGGTACG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (42 bp):
ATGAGACTACATGTAAGACCATATCTGGGATATGACATCGAT
Found at i:52887126 original size:39 final size:39
Alignment explanation
Indices: 52887009--52887275 Score: 321
Period size: 39 Copynumber: 6.7 Consensus size: 39
52886999 GCTCCTCGTT
* * *
52887009 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52887049 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
52887089 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
52887128 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
52887167 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
52887206 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
52887247 C-AA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTA
52887276 TTCAAATAAC
Statistics
Matches: 206, Mismatches: 13, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
39 135 0.66
40 60 0.29
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:52901596 original size:39 final size:40
Alignment explanation
Indices: 52901509--52901750 Score: 278
Period size: 40 Copynumber: 6.1 Consensus size: 40
52901499 TGGATGATAA
* * * *
52901509 CCGGGCTAAGTCCCGAAGGCAATTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
52901549 CCGAGC-AAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52901588 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
52901627 CCGGGCTAAGTCCCAAAGGCATTTGTACGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52901667 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
52901708 -CGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
52901747 CCGG
1 CCGG
52901751 TCAAATTCTG
Statistics
Matches: 174, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 72 0.41
40 99 0.57
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52904265 original size:79 final size:82
Alignment explanation
Indices: 52904154--52904338 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
52904144 GCTACTCGTT
* * *
52904154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
52904217 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
52904234 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
52904297 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
52904314 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52904339 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:52904338 original size:40 final size:40
Alignment explanation
Indices: 52904135--52904338 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
52904125 CGGAATTTAA
** *
52904135 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52904175 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52904215 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52904254 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52904294 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52904334 CCGGA
1 CCGGA
52904339 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52911673 original size:40 final size:40
Alignment explanation
Indices: 52911570--52911753 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
52911560 TGGATGATAA
* * * **
52911570 CCGGGCTAAGTCTCGAAGGCAATTGTGCT-AGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAAT
52911610 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
* * * *
52911649 CCAGGCTAAGTCCCGAAGGTATTTGTGCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
** * *
52911689 CCGGGCTAAGTCCCGAAGGCAAATGTGCGAGTCAC-ACTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA--AAT
*
52911729 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52911754 AGCGAGAAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 87 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
Found at i:52911784 original size:119 final size:119
Alignment explanation
Indices: 52911570--52911788 Score: 264
Period size: 119 Copynumber: 1.8 Consensus size: 119
52911560 TGGATGATAA
* * * * * * *
52911570 CCGGGCTAAGTCTCGAAGGCAATTGTGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCAAATGTGCGAGTCACTACTACCGGGCAAGTCCCGAAGGCATTTGA
* * *
52911635 GTGAGTTACTAAATCCAGGCTAAGTCCCGAAGGTATTTGTGCGAATTACTAAAT
66 GCGAGTAACTAAATCCAGGCTAAATCCCGAAGGTATTTGTGCGAATTACTAAAT
*
52911689 CCGGGCTAAGTCCCGAAGGCAAATGTGCGAGTCAC-ACTAACCGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCAAATGTGCGAGTCACTACT-ACCGGGC-AAGTCCCGAAGGCATTT
* * *
52911753 GAGCGAG-AAGCTATATCC-GGTTAAATTCCGAAGGTA
64 GAGCGAGTAA-CTAAATCCAGGCTAAATCCCGAAGGTA
52911789 CGTGATTTGG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
118 2 0.02
119 53 0.64
120 28 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCAAATGTGCGAGTCACTACTACCGGGCAAGTCCCGAAGGCATTTGA
GCGAGTAACTAAATCCAGGCTAAATCCCGAAGGTATTTGTGCGAATTACTAAAT
Found at i:52915721 original size:29 final size:29
Alignment explanation
Indices: 52915662--52915819 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
52915652 ATAGTAAGTC
* *
52915662 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
52915690 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
52915719 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
52915748 CGCACACTTACTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
52915777 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
52915806 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52915820 CAATCTCATG
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
28 13 0.11
29 102 0.86
30 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:52916962 original size:23 final size:22
Alignment explanation
Indices: 52916925--52916967 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
52916915 AACATTTTGT
52916925 CTTTCTTTTGTTTTTCTCTTATC
1 CTTTCTTTTGTTTTTC-CTTATC
52916948 CTTTCTTTT-TCTTTTCCTTA
1 CTTTCTTTTGT-TTTTCCTTA
52916968 GCTCACGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (22 bp):
CTTTCTTTTGTTTTTCCTTATC
Found at i:52923915 original size:29 final size:29
Alignment explanation
Indices: 52923773--52923902 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
52923763 ATAGTAAGTC
* *
52923773 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
52923801 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
52923830 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
52923859 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
52923888 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52923903 ATGCAATTTA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 13 0.13
29 85 0.87
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:52923923 original size:58 final size:58
Alignment explanation
Indices: 52923773--52923930 Score: 203
Period size: 58 Copynumber: 2.7 Consensus size: 58
52923763 ATAGTAAGTC
* * * *
52923773 CGCACACTTAGTG-TTATATAATAAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACCCACACACTTAGTGCTTACATAATCAAACT
* *
52923830 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACCCACACACTTAGTGCTTACATAATCAAACT
* * * *
52923888 TGCACACTTAGTGCTATGCA-ATTTAAACCCACACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACCCACACACTTAGTGC
52923931 CAATCTCATG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 13 0.14
58 75 0.82
59 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (58 bp):
CGCACACTTAGTGCTTACATAATCAAACCCACACACTTAGTGCTTACATAATCAAACT
Found at i:52925070 original size:23 final size:22
Alignment explanation
Indices: 52925033--52925075 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
52925023 AACATTTTGT
52925033 CTTTCTTTTGTTTTTCTCTTATC
1 CTTTCTTTTGTTTTTC-CTTATC
52925056 CTTTCTTTT-TCTTTTCCTTA
1 CTTTCTTTTGT-TTTTCCTTA
52925076 GCTCACGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (22 bp):
CTTTCTTTTGTTTTTCCTTATC
Found at i:52928491 original size:18 final size:19
Alignment explanation
Indices: 52928455--52928494 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
52928445 AAACGTGGTG
**
52928455 TTTTGAAAAACATTTATCT
1 TTTTGAAAAACATGCATCT
52928474 TTTTG-AAAACATGCATCT
1 TTTTGAAAAACATGCATCT
52928492 TTT
1 TTT
52928495 CCTACTACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (19 bp):
TTTTGAAAAACATGCATCT
Found at i:52929322 original size:27 final size:27
Alignment explanation
Indices: 52929300--52929389 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
52929290 AGGGGCATTT
52929300 CAGTCATTTTACCACATAAGGGCAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
**
52929327 CAGTCATTTTACCTTATAAGGGCAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
* * * *
52929354 CAGTCATTTTACCTCATGAGAGAAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
*
52929381 TAGTCATTT
1 CAGTCATTT
52929390 CATCAAATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (27 bp):
CAGTCATTTTACCACATAAGGGCAAAA
Found at i:52929350 original size:54 final size:54
Alignment explanation
Indices: 52929258--52929389 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
52929248 TAAATACCTT
* * * * * ***
52929258 ACATAGGGGCAAAAACAATCAATTTACCATGTAGGGGCATTTCAGTCATTTTACC
1 ACATAAGGGC-AAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACC
*
52929313 ACATAAGGGCAAAACAGTCATTTTACCTTATAAGGGCAAAACAGTCATTTTACC
1 ACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACC
* * * * *
52929367 TCATGAGAGAAAAATAGTCATTT
1 ACATAAGGGCAAAACAGTCATTT
52929390 CATCAAATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
54 54 0.86
55 9 0.14
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (54 bp):
ACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACC
Found at i:52931034 original size:28 final size:27
Alignment explanation
Indices: 52930999--52931061 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
52930989 TTCCTTCAAT
52930999 CATA-ATAATATCATACATGTATGAAA
1 CATATATAATATCATACATGTATGAAA
* *
52931025 CATATCATAATATCATGCATGTATGCAA
1 CATAT-ATAATATCATACATGTATGAAA
52931053 CATATATAA
1 CATATATAA
52931062 AATGGCATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 25 0.76
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (27 bp):
CATATATAATATCATACATGTATGAAA
Found at i:52936572 original size:96 final size:97
Alignment explanation
Indices: 52936408--52936608 Score: 350
Period size: 96 Copynumber: 2.1 Consensus size: 97
52936398 ATACAAAGGA
* *
52936408 CACACGCCTGTGTCACAGGCCGTGTGGACATTCAAAATAGGATCACATGGCATTGTTCCAGCTCG
1 CACACGCCCGTGTCACAGGCCGTGTGGACATTAAAAATAGGATCACATGGCATTGTTCCAGCTCG
*
52936473 TGTAACTCTCTGACTTGGGTTACACGA-CAAC
66 TGTAACTCTCTGACTTGGGTCACACGACCAAC
* *
52936504 CACACGCCCGTGTCACAGGCCGTGTGGACATTAAAAATAGGATTACATGGCCTTGTTCCAGCTCG
1 CACACGCCCGTGTCACAGGCCGTGTGGACATTAAAAATAGGATCACATGGCATTGTTCCAGCTCG
52936569 TGTAACTCTCTGACTTGGGTCACACGACCAAC
66 TGTAACTCTCTGACTTGGGTCACACGACCAAC
52936601 CACACGCC
1 CACACGCC
52936609 TGTATGACCA
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 87 0.88
97 12 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (97 bp):
CACACGCCCGTGTCACAGGCCGTGTGGACATTAAAAATAGGATCACATGGCATTGTTCCAGCTCG
TGTAACTCTCTGACTTGGGTCACACGACCAAC
Found at i:52938413 original size:40 final size:38
Alignment explanation
Indices: 52938369--52938554 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 38
52938359 TTCAGATATA
52938369 TATATATGGCACTTAGTGTGCGATTCAAGAAAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGA-TC-AGAAAGCTTCGGC
* * *
52938409 TATATTTGGTACTTAGTGTGCGACTCAGAATGGCTTCGGC
1 TATATATGGCACTTAGTGTGCGA-TCAGAA-AGCTTCGGC
* * *
52938449 TATATATGGCACTTAGTGTGCAAGACCGAGATAGCTTTGGC
1 TATATATGGCACTTAGTGTGC--GATC-AGAAAGCTTCGGC
* * * * * *
52938490 TATGTAAGGCACTTAGTGTGTGAGATTATAATAGCTTCGAC
1 TATATATGGCACTTA--GTGTGCGATCAGAA-AGCTTCGGC
* *
52938531 TATGTATAGGTACTTAGTGTGCGA
1 TATATAT-GGCACTTAGTGTGCGA
52938555 GATATTGAGT
Statistics
Matches: 116, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
39 4 0.03
40 59 0.51
41 36 0.31
42 12 0.10
43 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (38 bp):
TATATATGGCACTTAGTGTGCGATCAGAAAGCTTCGGC
Found at i:52938524 original size:41 final size:42
Alignment explanation
Indices: 52938419--52938557 Score: 115
Period size: 41 Copynumber: 3.4 Consensus size: 42
52938409 TATATTTGGT
* * * * * *
52938419 ACTTAGTGTGCGA-CTCAGAATGGCTTCGGCTATATAT-GGC
1 ACTTAGTGTGCGAGATTATAATAGCTTCGACTATGTATAGGC
* ** * * *
52938459 ACTTAGTGTGCAAGACCGA-GATAGCTTTGGCTATGTA-AGGC
1 ACTTAGTGTGCGAGA-TTATAATAGCTTCGACTATGTATAGGC
* *
52938500 ACTTAGTGTGTGAGATTATAATAGCTTCGACTATGTATAGGT
1 ACTTAGTGTGCGAGATTATAATAGCTTCGACTATGTATAGGC
52938542 ACTTAGTGTGCGAGAT
1 ACTTAGTGTGCGAGAT
52938558 ATTGAGTATT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
40 13 0.17
41 45 0.58
42 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
ACTTAGTGTGCGAGATTATAATAGCTTCGACTATGTATAGGC
Found at i:52938557 original size:42 final size:41
Alignment explanation
Indices: 52938479--52938557 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
52938469 CAAGACCGAG
* * *
52938479 ATAGCTTTGGCTATGTAAGGCACTTAGTGTGTGAGATTATA
1 ATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATTATA
*
52938520 ATAGCTTCGACTATGTATAGGTACTTAGTGTGCGAGAT
1 ATAGCTTCGACTATGTA-AGGCACTTAGTGTGCGAGAT
52938558 ATTGAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATTATA
Found at i:52942024 original size:12 final size:12
Alignment explanation
Indices: 52942007--52942034 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52941997 CTCTGTAGTC
52942007 TCTTGAATTGTA
1 TCTTGAATTGTA
52942019 TCTTGAATTGTA
1 TCTTGAATTGTA
52942031 TCTT
1 TCTT
52942035 TTTATGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (12 bp):
TCTTGAATTGTA
Found at i:52942049 original size:10 final size:10
Alignment explanation
Indices: 52942034--52942062 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
52942024 AATTGTATCT
52942034 TTTTATGTTA
1 TTTTATGTTA
52942044 TTTTATGTTA
1 TTTTATGTTA
52942054 TTTTATGTT
1 TTTTATGTT
52942063 TATTGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (10 bp):
TTTTATGTTA
Found at i:52947173 original size:40 final size:39
Alignment explanation
Indices: 52947129--52947313 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 39
52947119 GCTACTCATT
* *
52947129 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCA
* * * *
52947169 CAAATGCCTTCGGGACTTAACCAGGAATTGGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
* *
52947209 CCAATGCCTTCGGG-CTTAGCCCGGAAATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCA
* * * * *
52947248 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATAGTAAC-TCGCA
*
52947289 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52947314 CATCATTCGA
Statistics
Matches: 116, Mismatches: 22, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 76 0.66
41 10 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCA
Found at i:52947297 original size:79 final size:80
Alignment explanation
Indices: 52947129--52947313 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 80
52947119 GCTACTCATT
* ** *
52947129 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGAACTTAACCAGG
52947194 AATTGGTAACTCACAC
65 AATTGGTAACTCACAC
* * *
52947210 CAATGCCTTCGGG-CTTAGCCCGGAAATAGTATCTCGCACAAATGCCTTC-GAATCTTAGTCC-G
1 CAAAGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGAA-CTTA-ACCAG
* *
52947272 G-ATATGGTCACTTAGCA-
64 GAAT-TGGTAACTCA-CAC
*
52947289 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
52947314 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
78 4 0.05
79 57 0.65
80 24 0.27
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGAACTTAACCAGGA
ATTGGTAACTCACAC
Found at i:52952175 original size:39 final size:40
Alignment explanation
Indices: 52952024--52952193 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
52952014 GGACTAAGAT
* * *
52952024 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
52952064 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
52952104 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
52952144 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
52952183 CCGAAGGCATT
1 CCGAAGGCATT
52952194 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:52952213 original size:79 final size:80
Alignment explanation
Indices: 52952046--52952228 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
52952036 GTGCGAGATA
* * * *
52952046 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
52952111 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
52952126 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
52952190 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
52952205 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
52952229 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:52959963 original size:35 final size:34
Alignment explanation
Indices: 52959923--52959999 Score: 111
Period size: 34 Copynumber: 2.2 Consensus size: 34
52959913 GAAGGCCTTT
52959923 GTGCGAGATATAATCCGGTAAGTCCCGAGGCATTC
1 GTGCGAG-TATAATCCGGTAAGTCCCGAGGCATTC
* *
52959958 GTGCGAGTATAAACGGGTTAAGT-CCGAGGCATTC
1 GTGCGAGTATAATCCGG-TAAGTCCCGAGGCATTC
52959992 GTGCGAGT
1 GTGCGAGT
52960000 TGTTAATCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 27 0.69
35 12 0.31
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (34 bp):
GTGCGAGTATAATCCGGTAAGTCCCGAGGCATTC
Found at i:52959985 original size:34 final size:33
Alignment explanation
Indices: 52959905--52959999 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 33
52959895 ATATCCGGAC
* * *
52959905 TAAGATCCGAAGGCCTTTGTGCGAGATATAATCCGG
1 TAAG-TCCG-AGGCATTCGTGCGAG-TATAAACCGG
*
52959941 TAAGTCCCGAGGCATTCGTGCGAGTATAAACGGG
1 TAAGT-CCGAGGCATTCGTGCGAGTATAAACCGG
52959975 TTAAGTCCGAGGCATTCGTGCGAGT
1 -TAAGTCCGAGGCATTCGTGCGAGT
52960000 TGTTAATCCG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 27 0.51
35 19 0.36
36 7 0.13
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (33 bp):
TAAGTCCGAGGCATTCGTGCGAGTATAAACCGG
Found at i:52978512 original size:9 final size:9
Alignment explanation
Indices: 52978498--52978522 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
52978488 AGTCCTGAGG
52978498 AATGTGTTA
1 AATGTGTTA
52978507 AATGTGTTA
1 AATGTGTTA
52978516 AATGTGT
1 AATGTGT
52978523 CGTTTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
AATGTGTTA
Found at i:52986801 original size:8 final size:8
Alignment explanation
Indices: 52986788--52986823 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
52986778 TTTAATAAGA
52986788 TATTTTAT
1 TATTTTAT
52986796 TATTTTAT
1 TATTTTAT
52986804 TATTTTAT
1 TATTTTAT
52986812 TAATATTTAT
1 T-AT-TTTAT
52986822 TA
1 TA
52986824 AGTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 17 0.65
9 3 0.12
10 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:52993949 original size:40 final size:40
Alignment explanation
Indices: 52993875--52994096 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
52993865 AACCCAAGTA
* *
52993875 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
52993914 CCTTCGGGTCTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52993954 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
52993994 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCGCAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
52994034 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52994074 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52994097 CATCCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52999622 original size:38 final size:38
Alignment explanation
Indices: 52999571--52999649 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
52999561 CGTAACTGGT
*
52999571 TGTTCTATAAAGGCTGATGTTGGATATACCACAATCTA
1 TGTTCTATAAAGGCTGATGTTGGACATACCACAATCTA
52999609 TGTTCTATAAAGGCTGATGTTGGACATACCACAATCTA
1 TGTTCTATAAAGGCTGATGTTGGACATACCACAATCTA
52999647 TGT
1 TGT
52999650 AGAGGGATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (38 bp):
TGTTCTATAAAGGCTGATGTTGGACATACCACAATCTA
Found at i:53010153 original size:50 final size:51
Alignment explanation
Indices: 53010072--53010185 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 51
53010062 GACCATGGCA
* * * * *
53010072 ACAAGAGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
*
53010123 A-AAGTGATAAGTAATAGCTTCGGGTACACTTATCTAATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
*
53010173 ACAAGTGAAAAGT
1 ACAAGTGATAAGT
53010186 GGTAGCTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 44 0.80
51 11 0.20
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
Found at i:53010214 original size:31 final size:31
Alignment explanation
Indices: 53010176--53010324 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
53010166 ACAAATGACA
*
53010176 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
53010207 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* *
53010238 AGTGAAAAATGGTAGC-TCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTG-CTACCTGATC
* * *
53010269 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* *
53010300 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
53010325 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 3 0.03
31 102 0.95
32 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:53010496 original size:49 final size:46
Alignment explanation
Indices: 53010346--53010513 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 46
53010336 GATTTCCGTA
* * ** * * * * *
53010346 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTC-GTG
* * *
53010393 TAAGACTATATCTGGGATATGGCATCATTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTCGTG
* *
53010439 TAAGACCATAGCTGGGCTATGGCATCTATATGTGATATGTGATTTCGTT
1 TAAGACCATAGCTGGGCTATGGCATC-AT-TGAGATATGTGA-TTCGTG
*
53010488 TAAGACCATAGCTGGGCTATGACATC
1 TAAGACCATAGCTGGGCTATGGCATC
53010514 GATAAATGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 25 0.24
47 38 0.37
48 11 0.11
49 30 0.29
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (46 bp):
TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTCGTG
Found at i:53014862 original size:50 final size:51
Alignment explanation
Indices: 53014794--53014907 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 51
53014784 GACCATGGCA
* * * * *
53014794 ACAAGAGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
*
53014845 A-AAGTGATAAGTAATAGCTTCGGGTACACTTATCTAATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
*
53014895 ACAAGTGAAAAGT
1 ACAAGTGATAAGT
53014908 GGTAGCTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 44 0.80
51 11 0.20
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
Found at i:53014936 original size:31 final size:31
Alignment explanation
Indices: 53014898--53015046 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
53014888 ACAAATGACA
*
53014898 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
53014929 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
** *
53014960 AGTGAAAAACGGTAGC-TCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTG-CTACCTGATC
* * *
53014991 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* *
53015022 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
53015047 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 3 0.03
31 100 0.95
32 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:53015218 original size:49 final size:46
Alignment explanation
Indices: 53015068--53015235 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 46
53015058 GATTTCCGTA
* * ** * * * * *
53015068 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTC-GTG
* * *
53015115 TAAGACTATATCTGGGATATGGCATCATTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTCGTG
* *
53015161 TAAGACCATAGCTGGGCTATGGCATCTATATGTGATATGTGATTTCGTT
1 TAAGACCATAGCTGGGCTATGGCATC-AT-TGAGATATGTGA-TTCGTG
*
53015210 TAAGACCATAGCTGGGCTATGACATC
1 TAAGACCATAGCTGGGCTATGGCATC
53015236 GATAAATGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 25 0.24
47 38 0.37
48 11 0.11
49 30 0.29
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (46 bp):
TAAGACCATAGCTGGGCTATGGCATCATTGAGATATGTGATTCGTG
Found at i:53018266 original size:21 final size:23
Alignment explanation
Indices: 53018236--53018279 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
53018226 TGAAAGTTTC
53018236 TATGAATATTT-GC-TGGAATTA
1 TATGAATATTTAGCATGGAATTA
*
53018257 TATGATTATTTAGCATGGAATTA
1 TATGAATATTTAGCATGGAATTA
53018280 GTGCTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 2 0.10
23 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (23 bp):
TATGAATATTTAGCATGGAATTA
Found at i:53019593 original size:50 final size:51
Alignment explanation
Indices: 53019518--53019629 Score: 181
Period size: 50 Copynumber: 2.2 Consensus size: 51
53019508 CCACGGCAAT
* * *
53019518 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA-
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAC
53019568 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAC
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAC
*
53019619 AAGTGAAAAGT
1 AAGTGATAAGT
53019630 GGTAGTTCCG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 47 0.82
51 10 0.18
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAC
Found at i:53019658 original size:31 final size:31
Alignment explanation
Indices: 53019620--53019799 Score: 236
Period size: 31 Copynumber: 5.8 Consensus size: 31
53019610 ACAAATGACA
53019620 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
**
53019651 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
53019682 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
53019713 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
53019744 AGTGAAAAATTGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
53019775 AGTGAATAGTTGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
53019800 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
31 132 0.99
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:53019726 original size:93 final size:93
Alignment explanation
Indices: 53019620--53019799 Score: 261
Period size: 93 Copynumber: 1.9 Consensus size: 93
53019610 ACAAATGACA
* * * * ***
53019620 AGTGAAAAGTGGTAGTTCCGGCTACCTGATCAGTGAAAAGTGGTAGCTTTTGCTACCTGATCAGT
1 AGTGAAAAATGGTAGCTCCGACTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
*
53019685 GAAAAGTGGTAGCTTCTGCTACCTGATC
66 GAAAAGTGGTAGCTTCGGCTACCTGATC
*
53019713 AGTGAAAAATGGTAGCTCCGACTACCTGATCAGTGAAAAATTGTAGCTCCAGCTACCTGATCAGT
1 AGTGAAAAATGGTAGCTCCGACTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
* *
53019778 GAATAGTTGTAGCTTCGGCTAC
66 GAAAAGTGGTAGCTTCGGCTAC
53019800 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (93 bp):
AGTGAAAAATGGTAGCTCCGACTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
GAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:53019889 original size:47 final size:47
Alignment explanation
Indices: 53019809--53019994 Score: 212
Period size: 49 Copynumber: 3.9 Consensus size: 47
53019799 CAAGTGACAA
* * * *
53019809 GTGATTTCCGTATAAGACCATATCTAGGATATGGCATCGGTGTGATAT
1 GTGATTT-CGTATAAGACCATAGCTGGGCTATGGCATCGATGTGATAT
* * * *
53019857 ATG-CTACTGTATAAGACCATAGCTGGGCTATGGCATCTATATGTGATAT
1 GTGATTTC-GTATAAGACCATAGCTGGGCTATGGCATC--GATGTGATAT
*
53019906 GTGATTTCGTTTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
1 GTGATTTCGTATAAGACCATAGCTGGGCTATGGCATCG--ATGTGATAT
* *
53019955 GTGATTTCGTGTAAGACCATAGCTGGGCTATGACATCGAT
1 GTGATTTCGTATAAGACCATAGCTGGGCTATGGCATCGAT
53019995 AAATGAAGAT
Statistics
Matches: 117, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
46 1 0.01
47 29 0.25
48 2 0.02
49 83 0.71
50 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (47 bp):
GTGATTTCGTATAAGACCATAGCTGGGCTATGGCATCGATGTGATAT
Found at i:53019922 original size:49 final size:49
Alignment explanation
Indices: 53019868--53019995 Score: 229
Period size: 49 Copynumber: 2.6 Consensus size: 49
53019858 TGCTACTGTA
* *
53019868 TAAGACCATAGCTGGGCTATGGCATCTATATGTGATATGTGATTTCGTT
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
53019917 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
*
53019966 TAAGACCATAGCTGGGCTATGACATCGATA
1 TAAGACCATAGCTGGGCTATGGCATCGATA
53019996 AATGAAGATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
Found at i:53019955 original size:96 final size:99
Alignment explanation
Indices: 53019809--53019991 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 99
53019799 CAAGTGACAA
* * *
53019809 GTGATTTCCGTATAAGACCATATCTAGGATATGGCATCGGTGTGATATATGCT-A-CT-GTATAA
1 GTGATTTCCGTATAAGACCATAGCTAGGATATGGCATCGATATGATATATG-TGATCTCGTATAA
*
53019871 GACCATAGCTGGGCTATGGCATCTATATGTGATAT
65 GACCATAGCTGGGCTATGACATCTATATGTGATAT
* * * * *
53019906 GTGATTT-CGTTTAAGACCATAGCTGGGCTATGGCATCGATATG-TGATATGTGATTTCGTGTAA
1 GTGATTTCCGTATAAGACCATAGCTAGGATATGGCATCGATATGAT-ATATGTGATCTCGTATAA
53019969 GACCATAGCTGGGCTATGACATC
65 GACCATAGCTGGGCTATGACATC
53019992 GATAAATGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
95 2 0.03
96 36 0.49
97 8 0.11
98 27 0.37
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (99 bp):
GTGATTTCCGTATAAGACCATAGCTAGGATATGGCATCGATATGATATATGTGATCTCGTATAAG
ACCATAGCTGGGCTATGACATCTATATGTGATAT
Found at i:53032091 original size:5 final size:5
Alignment explanation
Indices: 53032081--53032111 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
53032071 GAACAAATAT
*
53032081 ATTCG ATTCG ATTCG ATTCA ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
53032112 ATTCCATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:53037603 original size:86 final size:84
Alignment explanation
Indices: 53037454--53037619 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 84
53037444 GGAAAGCTCG
* * *
53037454 TACAATGTCAACGTCCGAGACGTGGTCTTACATGTAATCAACTATCAATGCCACTGTCCCAGACA
1 TACAATGGCAACGTCCGAGACGTGGTCTTACACGTAATCAAC-ATCAATGCCAATGTCCCAGAC-
53037519 G-GGTCTTACACGAAATCAAA
64 GTGGTCTTACACGAAATCAAA
* *
53037539 TACAATGGCAATGTCCCG-GACGTGGTCTTACACGTAAATCATA-AGTCGATGCCAATGTCCCAG
1 TACAATGGCAACGT-CCGAGACGTGGTCTTACACGT-AATCA-ACA-TCAATGCCAATGTCCCAG
53037602 ACGTGGTCTTACACGAAA
62 ACGTGGTCTTACACGAAA
53037620 ACACATATCG
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
85 30 0.42
86 40 0.56
87 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (84 bp):
TACAATGGCAACGTCCGAGACGTGGTCTTACACGTAATCAACATCAATGCCAATGTCCCAGACGT
GGTCTTACACGAAATCAAA
Found at i:53037605 original size:44 final size:42
Alignment explanation
Indices: 53037456--53037616 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
53037446 AAAGCTCGTA
* * * *
53037456 CAATGTCAACGTCCGAGACGTGGTCTTACATGT-AATCAACTAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAA--AT
*
53037499 CAATGCCACTGTCCCAGACAG-GGTCTTACACG-AAATCAAAT
1 CAATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAATCAAAT
* *
53037540 ACAATGGCAATGTCCCGGACGTGGTCTTACACGTAAATCATAAGT
1 -CAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AA-T
*
53037585 CGATGCCAATGTCCCAGACGTGGTCTTACACG
1 CAATGCCAATGTCCCAGACGTGGTCTTACACG
53037617 AAAACACATA
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
41 3 0.03
42 27 0.27
43 37 0.37
44 32 0.32
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAAT
Found at i:53040389 original size:30 final size:30
Alignment explanation
Indices: 53040344--53040403 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53040334 ATTTAATACG
*
53040344 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
53040374 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
53040404 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:53047885 original size:21 final size:23
Alignment explanation
Indices: 53047833--53047894 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
53047823 TCTTATTTTT
*
53047833 TTATTTATTTATATAATTATTCA
1 TTATTTATTTATATAATTATACA
*
53047856 TTATATTATTTATATTATTATACA
1 TTAT-TTATTTATATAATTATACA
53047880 -T-TTTATTTATA-AATT
1 TTATTTATTTATATAATT
53047895 TTATTAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 9 0.26
22 1 0.03
23 5 0.14
24 17 0.49
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATTTATATAATTATACA
Found at i:53060324 original size:44 final size:44
Alignment explanation
Indices: 53060258--53060801 Score: 768
Period size: 44 Copynumber: 12.4 Consensus size: 44
53060248 ATGTAGATTA
* ** * *
53060258 AAGATAGCATATTTGGTGTCTCTGTATTATCAGAGAGCAGATCA
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* *
53060302 AAGATAGCATATTTGGCATCTCTGTATTGTCAGAGAGTAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * * *
53060346 AAGATAGAAAATTTGGCATATCTGTATTGTCAGAGAGCAGATAG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* *
53060390 AAGATAGCAAATTTGGCATCTCTGTATTATCAGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * * *
53060434 AAGATAGCAAATTTGGCGTCTCTATATTGTCAGAAAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
*
53060478 AAGATAGCAGATTTGGCATCTCTGTATTATCAGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * * *
53060522 AAGATAGCAGATTTGACTTCTCTGTATTGTCACAGAGCAGATCA
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
*
53060566 AAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * *
53060610 GAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAACAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
*
53060654 AAGATCA-CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCG
1 AAGAT-AGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
*
53060698 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATC-
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * *
53060741 AAGATAGGAGATTTGGCATCTCTGTATTATCAGGGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* *
53060785 GAGATAACAGATTTGGC
1 AAGATAGCAGATTTGGC
53060802 GTTCTTGAGT
Statistics
Matches: 448, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
43 40 0.09
44 407 0.91
45 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
Found at i:53074479 original size:15 final size:15
Alignment explanation
Indices: 53074459--53074487 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53074449 TTATTCTTAT
53074459 TATTTTAATCATAGC
1 TATTTTAATCATAGC
53074474 TATTTTAATCATAG
1 TATTTTAATCATAG
53074488 TTAGAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
TATTTTAATCATAGC
Found at i:53074554 original size:12 final size:12
Alignment explanation
Indices: 53074537--53074568 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
53074527 AAACTGGATC
53074537 AATCAAATTAGA
1 AATCAAATTAGA
53074549 AATCAAATTAGA
1 AATCAAATTAGA
53074561 AATCAAAT
1 AATCAAAT
53074569 GAGGTATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (12 bp):
AATCAAATTAGA
Found at i:53093460 original size:6 final size:6
Alignment explanation
Indices: 53093451--53093482 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
53093441 CACCGTAAGG
53093451 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
53093483 CAGGTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:53105115 original size:40 final size:40
Alignment explanation
Indices: 53105037--53105218 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
53105027 AACCCAAGTA
*
53105037 CCTTCGGGAATTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
* *
53105076 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
53105116 CCTTCGGGAATTAGTCCGGATATAGTCACTAGCGCAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
53105156 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53105196 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
53105219 CATCCGAGTA
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.10
40 112 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53113026 original size:40 final size:40
Alignment explanation
Indices: 53112952--53113173 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
53112942 AACCCATGTA
* *
53112952 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
53112991 CCTTCGAGTCTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
53113031 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
53113071 CCTTCGGGACTTAGCCCGGATATAGTCACTAGTGCAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
53113111 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53113151 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
53113174 CATCCTTGTA
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 11 0.07
40 152 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53116424 original size:80 final size:79
Alignment explanation
Indices: 53116278--53116502 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 79
53116268 GCTCCTCGTT
* * * * *
53116278 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
53116343 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* *
53116357 CGAATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
53116422 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * *
53116437 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTATTAAC-TCGCACAATGCCTTCGGGACTTAACCCG
53116501 GA
64 GA
53116503 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.31
80 81 0.65
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:53116462 original size:40 final size:40
Alignment explanation
Indices: 53116280--53116502 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
53116270 TCCTCGTTCA
* * * *
53116280 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
53116319 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
53116359 AATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
53116399 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * * * *
53116439 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
53116479 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
53116503 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:53116511 original size:41 final size:41
Alignment explanation
Indices: 53116434--53116511 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53116424 TTAGTATCTC
* * *
53116434 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53116475 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53116512 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53132007 original size:22 final size:22
Alignment explanation
Indices: 53131978--53132029 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
53131968 AGTACCATAC
* *
53131978 GCCCGTGTGGCTTATGTGACACT
1 GCCCGTGTGACTGATGTGACA-T
53132001 -CCCGTGTGACTGATGTGACAT
1 GCCCGTGTGACTGATGTGACAT
53132022 GCCCGTGT
1 GCCCGTGT
53132030 CATTAACCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.13, C:0.27, G:0.31, T:0.29
Consensus pattern (22 bp):
GCCCGTGTGACTGATGTGACAT
Found at i:53132471 original size:26 final size:26
Alignment explanation
Indices: 53132442--53132497 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
53132432 TGATACAAAT
53132442 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53132468 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53132494 TGAT
1 TGAT
53132498 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53136314 original size:34 final size:34
Alignment explanation
Indices: 53136270--53136337 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
53136260 GAAATACAAA
*
53136270 CCGTAATTCTCAAGTTTACTCGATATCCTCGTTC
1 CCGTAATTCTCAAGTTTACTCAATATCCTCGTTC
* *
53136304 CCGTAGTTCTCGAGTTTACTCAATATCCTCGTTC
1 CCGTAATTCTCAAGTTTACTCAATATCCTCGTTC
53136338 ACTTTCTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.38
Consensus pattern (34 bp):
CCGTAATTCTCAAGTTTACTCAATATCCTCGTTC
Found at i:53136879 original size:12 final size:12
Alignment explanation
Indices: 53136854--53136886 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53136844 AAACCCTAAA
*
53136854 TTTTTCTTT-TC
1 TTTTTCTTTCCC
53136865 TTTTTCTTTCCC
1 TTTTTCTTTCCC
53136877 TTTTTCTTTC
1 TTTTTCTTTC
53136887 TTTCTTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:53148674 original size:43 final size:43
Alignment explanation
Indices: 53148608--53148810 Score: 198
Period size: 43 Copynumber: 4.8 Consensus size: 43
53148598 AAGTACAATA
* * * *
53148608 CCGACATCCCGGACATGGTCTTACATGTAATTC-AATATCGATG
1 CCGATATCCCAGACATGGTCTTACACGTAAATCAAATA-CGATG
** *
53148651 CCTCTATCCCAGACAGGGTCTTACACG-AAATCAAATACGATG
1 CCGATATCCCAGACATGGTCTTACACGTAAATCAAATACGATG
* * *
53148693 CCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAT-CGAGG
1 CCGATATCCCAGACATGGTCTTACACGTAAATC-AAATACGATG
** * *
53148736 CTTATGTCCCAGACACGGTCTTACACG-AAATCAAATACGATG
1 CCGATATCCCAGACATGGTCTTACACGTAAATCAAATACGATG
* * * *
53148778 CCGATGTGCCATACATGGTCTTATACGTAAATC
1 CCGATATCCCAGACATGGTCTTACACGTAAATC
53148811 TCAAGGCTTG
Statistics
Matches: 131, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.02
42 62 0.47
43 63 0.48
44 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CCGATATCCCAGACATGGTCTTACACGTAAATCAAATACGATG
Found at i:53148703 original size:42 final size:43
Alignment explanation
Indices: 53148614--53148810 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 43
53148604 AATACCGACA
* * * ** *
53148614 TCCCGGACATGGTCTTACATGTAATTC-AATATCGATGCCTCTA
1 TCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCCGATG
*
53148657 TCCCAGACAGGGTCTTACACG-AAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCGATG
* * **
53148699 TCCCAGACATGGTCTTACACGTAAATCTCAAT-CGAGGCTTATG
1 TCCCAGACATGGTCTTACACGTAAATC-AAATACGATGCCGATG
*
53148742 TCCCAGACACGGTCTTACACG-AAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCGATG
* * *
53148784 TGCCATACATGGTCTTATACGTAAATC
1 TCCCAGACATGGTCTTACACGTAAATC
53148811 TCAAGGCTTG
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.02
42 62 0.48
43 60 0.47
44 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCGATG
Found at i:53148762 original size:85 final size:85
Alignment explanation
Indices: 53148614--53148844 Score: 294
Period size: 85 Copynumber: 2.8 Consensus size: 85
53148604 AATACCGACA
* * * * * * *
53148614 TCCCGGACATGGTCTTACATGT-AAT-TCAATATCGATGCCTCTATCCCAGACAGGGTCTTACAC
1 TCCCAGACATGGTCTTACACGTAAATCTC-A-ATCGAGGCTTATGTCCCAGACACGGTCTTACAC
53148677 GAAATCAAATACGATGCCGATG
64 GAAATCAAATACGATGCCGATG
53148699 TCCCAGACATGGTCTTACACGTAAATCTCAATCGAGGCTTATGTCCCAGACACGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGTAAATCTCAATCGAGGCTTATGTCCCAGACACGGTCTTACACGA
53148764 AATCAAATACGATGCCGATG
66 AATCAAATACGATGCCGATG
* * * * *
53148784 TGCCATACATGGTCTTATACGTAAATCTC-A---AGGCTTGTGTCTCAGACACGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGTAAATCTCAATCGAGGCTTATGTCCCAGACACGGTCTTACACGA
53148845 TATCTCAGAC
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
81 29 0.22
84 1 0.01
85 96 0.73
86 4 0.03
87 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (85 bp):
TCCCAGACATGGTCTTACACGTAAATCTCAATCGAGGCTTATGTCCCAGACACGGTCTTACACGA
AATCAAATACGATGCCGATG
Found at i:53153875 original size:49 final size:49
Alignment explanation
Indices: 53153796--53154027 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
53153786 TCTATTGTGA
*
53153796 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
53153845 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TT
* * * * * * *
53153896 GATCACGTTTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
53153945 AAGTCACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
53153995 GGTCGCACGTGTAGTACTAAGTGTAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
53154028 TGCATACTAG
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 72 0.47
50 41 0.27
51 40 0.26
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:53154004 original size:101 final size:98
Alignment explanation
Indices: 53153798--53154027 Score: 293
Period size: 101 Copynumber: 2.3 Consensus size: 98
53153788 TATTGTGAGG
* * * *
53153798 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGT-TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTAGTCACATGTGTAGTACT
*
53153863 AAGTGCAGGCTACTATGTGTACCCGATAACTTTGA
65 AAGTGCAGGCTACTACGTGTACCCGATAAC-TTGA
* * * *
53153898 TCACGTTTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATTAAGTCACGTGTTTAGTAC
1 TCACG-TTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-AGTCACATGTGTAGTAC
* *
53153963 TAAGTGCAGGCTACTACGTGTACCGGATAA-TTGG
64 TAAGTGCAGGCTACTACGTGTACCCGATAACTTGA
53153997 TCGCACG-TGTAGTACTAAGTGTAGGCTACTA
1 T--CACGTTGTAGTACTAAGTGTAGGCTACTA
53154028 TGCATACTAG
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
99 28 0.24
100 41 0.36
101 46 0.40
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACGTTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTAGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCCGATAACTTGA
Found at i:53157065 original size:46 final size:46
Alignment explanation
Indices: 53157015--53157189 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
53157005 TGTTTGGGCA
*
53157015 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
53157061 TCCGAACTCGTTGAGTTGAGT-TGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
53157107 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
53157153 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53157190 GCGAGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 7 0.07
46 89 0.86
47 7 0.07
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53160149 original size:15 final size:15
Alignment explanation
Indices: 53160129--53160223 Score: 131
Period size: 15 Copynumber: 6.4 Consensus size: 15
53160119 GTATCTTGGG
*
53160129 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
53160144 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53160159 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53160174 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
53160189 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
53160204 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
53160218 TTTCTT
1 TTTCTT
53160224 ATTATCTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
14 10 0.14
15 60 0.83
16 2 0.03
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53165700 original size:15 final size:15
Alignment explanation
Indices: 53165680--53165774 Score: 131
Period size: 15 Copynumber: 6.4 Consensus size: 15
53165670 GTATCTTGGG
*
53165680 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
53165695 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53165710 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53165725 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
53165740 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
53165755 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
53165769 TTTCTT
1 TTTCTT
53165775 ATTATCTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
14 10 0.14
15 60 0.83
16 2 0.03
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53168187 original size:46 final size:46
Alignment explanation
Indices: 53168137--53168319 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 46
53168127 TGTTTGGGCA
*
53168137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53168183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGTTCGA-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTT--ATG-GATGCAA--A--CG
* * * *
53168236 TCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGACGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
53168282 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
53168320 CGGGTTACAT
Statistics
Matches: 115, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
46 66 0.57
47 3 0.03
48 2 0.02
49 7 0.06
50 5 0.04
51 2 0.02
52 3 0.03
53 27 0.23
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53173827 original size:15 final size:15
Alignment explanation
Indices: 53173807--53173841 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53173797 TTATTAGAAG
53173807 AAAAAGAAGAAGACA
1 AAAAAGAAGAAGACA
* *
53173822 AAAAAGGAGAAGAGA
1 AAAAAGAAGAAGACA
53173837 AAAAA
1 AAAAA
53173842 AAGGATTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGACA
Found at i:53173843 original size:17 final size:18
Alignment explanation
Indices: 53173811--53173846 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
53173801 TAGAAGAAAA
*
53173811 AGAAGAAGACAAAAAAGG
1 AGAAGAAGAAAAAAAAGG
53173829 AGAAG-AGAAAAAAAAGG
1 AGAAGAAGAAAAAAAAGG
53173846 A
1 A
53173847 TTTGGGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAGAAGAAAAAAAAGG
Found at i:53175567 original size:15 final size:14
Alignment explanation
Indices: 53175534--53175581 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
53175524 TAGGAAAGGT
* *
53175534 ATGAAAACAGAGAG
1 ATGAAAAAAAAGAG
*
53175548 A-GAAACAAAAGAG
1 ATGAAAAAAAAGAG
53175561 AATGAAAAAAAAGAG
1 -ATGAAAAAAAAGAG
53175576 ATGAAA
1 ATGAAA
53175582 GTTTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.32
14 8 0.29
15 11 0.39
ACGTcount: A:0.67, C:0.04, G:0.23, T:0.06
Consensus pattern (14 bp):
ATGAAAAAAAAGAG
Found at i:53178113 original size:3 final size:3
Alignment explanation
Indices: 53178105--53178144 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53178095 CTTCATCTAA
53178105 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53178145 TTATTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53178149 original size:3 final size:3
Alignment explanation
Indices: 53178143--53178182 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53178133 ATAATAATAA
53178143 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
53178183 TTGTTTCACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:53185146 original size:39 final size:39
Alignment explanation
Indices: 53184984--53185136 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
53184974 ATTACCAGCA
* * *
53184984 CCAGCACGAAGCCTGCTGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
53185023 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
53185062 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
53185101 CCAGCACGAAGCCTGCGAGACTCTAACCCGGATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
53185137 ATCTCAGCAC
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:53193572 original size:56 final size:54
Alignment explanation
Indices: 53193486--53193631 Score: 177
Period size: 56 Copynumber: 2.6 Consensus size: 54
53193476 TGATACATGT
* * *
53193486 TAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCAT-GTAATTATGTGGTACACCC
1 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGT-A--ATGTGATACACCC
* **
53193542 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGTGATGCATGC
1 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGTGATACACCC
*
53193596 TAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGG
1 TAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGG
53193632 TGTGCTATGT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
54 22 0.28
56 56 0.70
57 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.27
Consensus pattern (54 bp):
TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGTGATACACCC
Found at i:53197681 original size:40 final size:41
Alignment explanation
Indices: 53197625--53197836 Score: 274
Period size: 40 Copynumber: 5.3 Consensus size: 41
53197615 CATTTGAATG
* *
53197625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
53197665 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
53197705 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
53197745 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
53197785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTAG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
53197825 ATATCC-GGCTAA
1 ATATCCGGGCTAA
53197837 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.05
40 135 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:53197832 original size:80 final size:80
Alignment explanation
Indices: 53197625--53197817 Score: 350
Period size: 80 Copynumber: 2.4 Consensus size: 80
53197615 CATTTGAATG
53197625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
53197690 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
*
53197705 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
53197770 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* *
53197785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
53197818 TGTAGTTATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:53201712 original size:31 final size:31
Alignment explanation
Indices: 53201669--53201783 Score: 153
Period size: 31 Copynumber: 3.7 Consensus size: 31
53201659 TTAGTCTTGA
*
53201669 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
* *
53201699 CATACCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
53201730 CATATCACTAGGCCGAAA-CCTTTTCATAAAT
1 CATATCACTGGGCC-AAAGCCTTTTCATAAAT
* *
53201761 CACATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
53201784 ACTGTAAACG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.08
31 65 0.89
32 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:53201859 original size:42 final size:42
Alignment explanation
Indices: 53201807--53201940 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
53201797 TGGCCCTTAG
* *
53201807 GCCCATTTCAAAATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
53201849 GCCCAATTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
53201891 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
53201933 GCCCATTT
1 GCCCATTT
53201941 AGGGAGACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:53202124 original size:24 final size:25
Alignment explanation
Indices: 53202088--53202156 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
53202078 CTCTTTTAAC
53202088 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
53202113 AACTGGGG-AAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
53202137 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
53202157 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.45
25 22 0.55
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:53202996 original size:27 final size:27
Alignment explanation
Indices: 53202966--53203030 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
53202956 GGGCATATTC
53202966 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
53202993 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
53203020 GTCTTTTTACC
1 GTCATTTTACC
53203031 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:53203114 original size:27 final size:27
Alignment explanation
Indices: 53203084--53203169 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
53203074 GTAAAGCTAG
53203084 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
* *
53203111 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAAGGTATTTC-AGTAATTTTGT
* * *
53203137 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAAGGTATTTCAGTAATTTTGT
53203167 AAA
1 AAA
53203170 TCAGGGGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 7 0.15
29 17 0.36
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:53203187 original size:27 final size:27
Alignment explanation
Indices: 53203133--53203297 Score: 149
Period size: 27 Copynumber: 6.1 Consensus size: 27
53203123 TTTCTATAAT
* *
53203133 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
53203161 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
53203188 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* ** * **
53203215 TTTCACAAGCCAGTGGTATTTCAGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
53203242 TTTTACAAAAT-AGGGGTATTTTGGTAA
1 TTTTAC-AAATCAGGGGTATTTTGGTAA
53203269 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
53203296 TT
1 TT
53203298 CTATCCTACA
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.04
27 97 0.87
28 10 0.09
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:53203189 original size:56 final size:54
Alignment explanation
Indices: 53203092--53203217 Score: 130
Period size: 56 Copynumber: 2.3 Consensus size: 54
53203082 AGAAACCAAA
* *
53203092 GGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAA-TTTTACAAA-TCAAG
* * * **
53203148 GGTATTTCTGTAATTTTGTAAA-TCAGGGGTATTT-TGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTGTAAACT-AAGGGTATTTCT-ATAATTTTACAAATCAAG
*
53203202 GGTATTTCGGTAATTT
1 GGTATTTCAGTAATTT
53203218 CACAAGCCAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 18 0.30
55 10 0.17
56 32 0.53
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.44
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAATTTTACAAATCAAG
Done.