Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 24 of 135
Found at i:9405604 original size:2 final size:2
Alignment explanation
Indices: 9405597--9405630 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9405587 ATAAACATGC
9405597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9405631 GAAAATCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9414928 original size:107 final size:107
Alignment explanation
Indices: 9414633--9414951 Score: 493
Period size: 107 Copynumber: 3.0 Consensus size: 107
9414623 CTTTGAAGTT
* *
9414633 TTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
* **
9414698 CTTGAATTTCCAAATACAAAATATTGCCTTATTTAGAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAATC
* *
9414740 TTAAAAGGATATTTGGCTATTTGGTCGAAC----AATTGAAACCCAACACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
* * *
9414801 CTCGAATTTCCAAACGCAAAATATTTCCCTATTTAAAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAATC
* *
9414843 TTAAAATGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCTAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
*
9414908 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAATC
9414950 TT
1 TT
9414952 TTCTTTTGAT
Statistics
Matches: 190, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
103 94 0.49
107 96 0.51
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAATC
Found at i:9415459 original size:20 final size:18
Alignment explanation
Indices: 9415432--9415478 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
9415422 ACATATATGT
*
9415432 ATATATATAAGGTATATAA
1 ATATATATAA-GTATAAAA
9415451 ATAATATATAAGTATAAAA
1 AT-ATATATAAGTATAAAA
9415470 ATATATATA
1 ATATATATA
9415479 CAAATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
ATATATATAAGTATAAAA
Found at i:9415533 original size:26 final size:26
Alignment explanation
Indices: 9415497--9415550 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
9415487 TTAAAATAAT
* * **
9415497 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
9415523 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
9415549 AT
1 AT
9415551 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:9415620 original size:12 final size:12
Alignment explanation
Indices: 9415603--9415632 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9415593 TAATAATGAT
9415603 GTAATAGTAATA
1 GTAATAGTAATA
9415615 GTAATAGTAATA
1 GTAATAGTAATA
*
9415627 ATAATA
1 GTAATA
9415633 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (12 bp):
GTAATAGTAATA
Found at i:9416042 original size:120 final size:120
Alignment explanation
Indices: 9415829--9416068 Score: 462
Period size: 120 Copynumber: 2.0 Consensus size: 120
9415819 CCCAAGTCCT
*
9415829 GAAGCGCAGCATTTATGAGCGGACTAAATTGGAGCGGACGAAAAATTATGCGGCCAAAATTAAAA
1 GAAGCGCAGCATTTATGAGCGGACTAAATTGGAGCGAACGAAAAATTATGCGGCCAAAATTAAAA
9415894 GAATTGAAAGGCTACATGGAACGTGTCGCAGAATTAAAGGGACCAAAAGCACAAA
66 GAATTGAAAGGCTACATGGAACGTGTCGCAGAATTAAAGGGACCAAAAGCACAAA
*
9415949 GAAGCGCAGCATTTATGCGCGGACTAAATTGGAGCGAACGAAAAATTATGCGGCCAAAATTAAAA
1 GAAGCGCAGCATTTATGAGCGGACTAAATTGGAGCGAACGAAAAATTATGCGGCCAAAATTAAAA
9416014 GAATTGAAAGGCTACATGGAACGTGTCGCAGAATTAAAGGGACCAAAAGCACAAA
66 GAATTGAAAGGCTACATGGAACGTGTCGCAGAATTAAAGGGACCAAAAGCACAAA
9416069 TAACCCACTA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (120 bp):
GAAGCGCAGCATTTATGAGCGGACTAAATTGGAGCGAACGAAAAATTATGCGGCCAAAATTAAAA
GAATTGAAAGGCTACATGGAACGTGTCGCAGAATTAAAGGGACCAAAAGCACAAA
Found at i:9417668 original size:26 final size:26
Alignment explanation
Indices: 9417639--9417688 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9417629 AATACCTAAA
* * *
9417639 CTTTAATTTGATTACCTAAATTGACC
1 CTTTAATTCGAGTACCCAAATTGACC
9417665 CTTTAATTCGAGTACCCAAATTGA
1 CTTTAATTCGAGTACCCAAATTGA
9417689 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (26 bp):
CTTTAATTCGAGTACCCAAATTGACC
Found at i:9422852 original size:82 final size:82
Alignment explanation
Indices: 9422712--9423149 Score: 505
Period size: 82 Copynumber: 5.2 Consensus size: 82
9422702 TGAATCTCCA
* * *
9422712 ATAAGATC--TGGTTTTGTCCGCTCCGCTACTGCTTAGAGAGATAAGACTTGATGCGATCTGCTC
1 ATAAGATCTGTGGTTTTGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
* *
9422775 CACTATTGCTTAGGGTG
66 CACTACTGCTTAGGGAG
*
9422792 ATAAGATCTGTGGTTTTGTCCGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
1 ATAAGATCTGTGGTTTTGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
9422857 CACTACTGCTTAGGGAG
66 CACTACTGCTTAGGGAG
** * ** *
9422874 ATAAGATCTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG-T
1 ATAAGATCT-GTGGTTTT-GTCCGCTCCACTACTGCTTAGGGAGATAAGAC---TTGATGT-GAT
*
9422938 CTACTCCACTACTGCTTAGGGAG
60 CTGCTCCACTACTGCTTAGGGAG
* ** *
9422961 ATAAGA-CTG-GTTTCTTTCGTCTACTCCACTACTGCTTAGGGAGATAAGAC-TGATTTCTTTCG
1 ATAAGATCTGTG-GT-TTT-GTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGA----TGT-G
9423023 -TCTGCTCCACTACTGCTTAGGGAG
58 ATCTGCTCCACTACTGCTTAGGGAG
*
9423047 ATAAGA-CTTGTGGTTTTGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCT
1 ATAAGATC-TGTGGTTTTGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCT
*
9423111 CCACTATTGCTTAGGGAG
65 CCACTACTGCTTAGGGAG
9423129 ATAAGATCTGTGGTTTCTGTC
1 ATAAGATCTGTGGTTT-TGTC
9423150 TGCTAGAGAA
Statistics
Matches: 315, Mismatches: 23, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
80 8 0.03
81 1 0.00
82 116 0.37
83 11 0.03
84 30 0.10
85 33 0.10
86 78 0.25
87 36 0.11
88 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (82 bp):
ATAAGATCTGTGGTTTTGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
CACTACTGCTTAGGGAG
Found at i:9422945 original size:43 final size:43
Alignment explanation
Indices: 9422768--9423134 Score: 418
Period size: 43 Copynumber: 8.7 Consensus size: 43
9422758 CTTGATGCGA
* * *
9422768 TCTGCTCCACTATTGCTTAGGGTGATAAGATCT-GTGGT-TTT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGT-TTCTTTCG
* * ** *
9422810 TCCGCTCCGCTACTGCTTAGGGAGATAAGAC---TTGATGT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
*
9422849 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTTCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTCG
9422894 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
*
9422937 TCTACTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
* *
9422980 TCTACTCCACTACTGCTTAGGGAGATAAGACTGATTTCTTTCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
* *
9423023 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGT-TTT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGT-TTCTTTCG
* ** *
9423065 TCCGCTCCACTACTGCTTAGGGAGATAAGAC----TTGATGCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
*
9423104 ATCTGCTCCACTATTGCTTAGGGAGATAAGA
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA
9423135 TCTGTGGTTT
Statistics
Matches: 289, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 5 0.02
40 56 0.19
41 2 0.01
42 57 0.20
43 131 0.45
44 35 0.12
45 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG
Found at i:9423305 original size:99 final size:99
Alignment explanation
Indices: 9423158--9423850 Score: 851
Period size: 99 Copynumber: 7.0 Consensus size: 99
9423148 TCTGCTAGAG
* * * **
9423158 AAGTGAGATTCGCCGTTTTGGCTTCACTCTGATTAATTGCAATGTCGGGGAACAAGATTCGCCGT
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
*
9423223 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGA
66 TGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* **
9423257 AAGTAAGATTCGTCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAACAAGATTCGCCGT
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
9423322 TGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
66 TGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* * * * *
9423356 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAA-CAAGATTCGCCG
* * * * *
9423421 TCGTAGCTTTAATCTGCTGCACTGTA-CTACC-AGA
65 TTGTAGCTTTAATCTGATCCACTGCATC-GCCAAGA
*
9423455 GAAGTGAGATTCGCCGTTGTGGCTTCAATC-TCTTTAATTGCAATGTCGGGGAACAAGATTCGCC
1 -AAGTAAGATTCGCCGTTGTGGCTTCAATCTTC-TTAATTGCAATGTCGGGGAACAAGATTCGCC
* *
9423519 GTTGTAGCTTCAATCTGATCCACTGCATTGCCAAGA
64 GTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* * * * *
9423555 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAA-CAAGATTCGCCG
* * * *
9423620 TCGTAGCTTTAATCTGCTCTACTGTA-CTGCC-AGAA
65 TTGTAGCTTTAATCTGATCCACTGCATC-GCCAAG-A
*
9423655 AAGTGAGATTCGCCGTTGTGGCTTCAATC-TCTTTAATTGCAATGTCGGGGAACAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTC-TTAATTGCAATGTCGGGGAACAAGATTCGCCG
* * * * * *
9423719 TTGTAGCTTCAATCTAATCCATTACATCTCCAGGA
65 TTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
** * * *
9423754 AAGTAAGATTCGCCGTTACGGCTTCAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAA-CAAGATTCGCCG
*
9423819 TCGTAGCTTTAATCT-ACTCCACTGCATCGCCA
65 TTGTAGCTTTAATCTGA-TCCACTGCATCGCCA
9423851 GAGAGATAAT
Statistics
Matches: 508, Mismatches: 70, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
99 303 0.60
100 205 0.40
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (99 bp):
AAGTAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
TGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
Found at i:9423502 original size:199 final size:199
Alignment explanation
Indices: 9423158--9423842 Score: 1034
Period size: 199 Copynumber: 3.4 Consensus size: 199
9423148 TCTGCTAGAG
* ** * ** * * * *
9423158 AAGTGAGATTCGCCGTTTTGGCTTCACTCTGATTAATTGCAATGTCGGGGAA-CAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
* * * * * *
9423222 TTGTAGCTTCAATCTGATCCACTGCA-TCGCCA-AGAAAGTAAGATTCGTCGTTGTGGCTTCAAT
66 TCGTAGCTTTAATCTGCTCCACTGTACT-GCCAGAG-AAGTGAGATTCGCCGTTGTGGCTTCAAT
** *
9423285 CTGATTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGCATCG
129 CTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCG
9423350 CCAAGA
194 CCAAGA
9423356 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
* *
9423421 TCGTAGCTTTAATCTGCTGCACTGTACTACCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCT
66 TCGTAGCTTTAATCTGCTCCACTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCT
*
9423486 CTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATTGCC
131 CTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
9423551 AAGA
196 AAGA
9423555 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
* *
9423620 TCGTAGCTTTAATCTGCTCTACTGTACTGCCAGAAAAGTGAGATTCGCCGTTGTGGCTTCAATCT
66 TCGTAGCTTTAATCTGCTCCACTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCT
* * * *
9423685 CTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTAATCCATTACATCTCC
131 CTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
*
9423750 AGGA
196 AAGA
* * *
9423754 AAGTAAGATTCGCCGTTACGGCTTCAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
*
9423819 TCGTAGCTTTAATCTACTCCACTG
66 TCGTAGCTTTAATCTGCTCCACTG
9423843 CATCGCCAGA
Statistics
Matches: 447, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
198 43 0.10
199 401 0.90
200 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (199 bp):
AAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGCGAAGCAAGATTCACCG
TCGTAGCTTTAATCTGCTCCACTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCT
CTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
AAGA
Found at i:9423613 original size:50 final size:50
Alignment explanation
Indices: 9423154--9423833 Score: 335
Period size: 50 Copynumber: 13.7 Consensus size: 50
9423144 TCTGTCTGCT
** * * ** *
9423154 AGAGAAGTGAGATTCGCCGTTTTGGCTTCACTCTGATTAATTGCAATGTC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* * * ** ** * **
9423204 GGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGC-ATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAAT-ATC
* * ** *
9423253 A-AGAAAGTAAGATTCGTCGTTGTGGCTTCAATCTGATTAATTGCAATGTC
1 AGAG-AAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* * * * ** ** * **
9423303 GGGGAA-CAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGC-ATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAAT-ATC
* *
9423352 A-AGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATC
1 AGAG-AAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* * * * * * ** * * * *
9423402 AGCGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGCACTGTACTACC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
** *
9423452 AGAGAAGTGAGATTCGCCGTTGTGGCTTCAATC-TCTTTAATTGCAATGTC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTC-TTAATTGCAATATC
* * * ** ** * * **
9423502 GGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATTGCC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* *
9423551 A-AGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTCTTAATTGCAATATC
1 AGAG-AAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* * * * * * * * * **
9423601 AGCGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCT-ACTGTACTGCC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCT-TAATTGCAATATC
* ** *
9423651 AGAAAAGTGAGATTCGCCGTTGTGGCTTCAATC-TCTTTAATTGCAATGTC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTC-TTAATTGCAATATC
* * * ** ** * *
9423701 GGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTAATCCATTAC-ATCTCC
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATAT-C
* **
9423750 AG-GAAAGTAAGATTCGCCGTTACGGCTTCAATCTTCTTAATTGCAATATC
1 AGAG-AAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
* * *
9423800 AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCT
1 AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCT
9423834 ACTCCACTGC
Statistics
Matches: 454, Mismatches: 152, Indels: 48
0.69 0.23 0.07
Matches are distributed among these distances:
48 11 0.02
49 136 0.30
50 295 0.65
51 12 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
AGAGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATATC
Found at i:9424030 original size:44 final size:45
Alignment explanation
Indices: 9423899--9424666 Score: 658
Period size: 44 Copynumber: 17.5 Consensus size: 45
9423889 TCAGAGAGAT
* * * *
9423899 AAGATCTGTTTTCTTCGATCAACTTC-CTACCAATATAGAAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * *
9423943 -AGAACCTGCTAATCTACAATCTACTTCAC-GCCAATACATGAAGAC
1 AAG-ATCTGCT-ATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* *
9423988 AAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * * * *
9424032 AGGACCCGCTATCTTTGATCTACTTCAC-GCTAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * ** *
9424076 AAGATCTGCT-TCTTCGATCTACTTCGCCACCTGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * *
9424120 AGGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * *
9424163 AGGACCTGCTATCTTCGATCCACTTCAC-GCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * *
9424207 AAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * *
9424252 AAGATCTGC-ATCTTCGATCCACTTC-CTACCAGTATAGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * * *
9424295 AGGACCTGCTATCTTTGATCTACTTTA-TGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * *
9424339 AAGATCTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* *
9424384 AAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * *
9424427 AGGACCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * *
9424471 TAGATCTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * *
9424516 CAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * * * *
9424559 AGGATCCGC-ATCTTTGATCTACTTCAC-GCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
* * * *
9424602 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
9424647 AAGATCTGC-ATCTTCGATCT
1 AAGATCTGCTATCTTCGATCT
9424667 GTTCTCTGGG
Statistics
Matches: 565, Mismatches: 139, Indels: 40
0.76 0.19 0.05
Matches are distributed among these distances:
43 135 0.24
44 314 0.56
45 113 0.20
46 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (45 bp):
AAGATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGAC
Found at i:9424292 original size:132 final size:132
Alignment explanation
Indices: 9423982--9424665 Score: 1176
Period size: 132 Copynumber: 5.2 Consensus size: 132
9423972 GCCAATACAT
* * *
9423982 GAAGACAAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCCGCTATCTT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTT
* *
9424047 TGATCTACTTCACGCTAATACATGAAGACAAGATCTGC-TTCTTCGATCTACTTCGCCACCTGTA
65 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
9424111 TGG
130 TGG
* *
9424114 GAAGACAGGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
* *
9424179 GATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
9424244 GG
131 GG
*
9424246 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAGTATAGGAAGATAGGACCTGCTATCTTT
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
* * *
9424311 GATCTACTTTATGCCAATACATGAAGACAAGATCTGCTCTCTTCGATCTACTTCGCCACCAGTAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
9424376 GG
131 GG
9424378 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
* *
9424443 GATCTACTTCACGCCAATACATGAAGACTAGATCTGCTCTCTTCGATCTACTTCGCCACCAGTAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
9424508 GG
131 GG
*
9424510 GAAGACCAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCC-GC-ATCTT
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA-CCTGCTATCTT
*
9424573 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
65 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
9424638 TGG
130 TGG
9424641 GAAGACAAGATCTGCATCTTCGATC
1 GAAGACAAGATCTGCATCTTCGATC
9424666 TGTTCTCTGG
Statistics
Matches: 524, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
131 175 0.33
132 347 0.66
133 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (132 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
GG
Found at i:9425346 original size:45 final size:45
Alignment explanation
Indices: 9425248--9425348 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
9425238 GCAAAGCTCT
* *
9425248 AAATGAACAAATTAATCAAGAAAGCAAATTTTGCTAGAATACAAA
1 AAATGAATAAATTAATCAAGAAAGCAAATTTTGCTAAAATACAAA
* ** **
9425293 ATGA-GAATAAATTAATCAAGATGGCGTATTTTG-TCAAAATACAAA
1 A-AATGAATAAATTAATCAAGAAAGCAAATTTTGCT-AAAATACAAA
9425338 AAATGAATAAA
1 AAATGAATAAA
9425349 ATGGAAATAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
44 2 0.04
45 42 0.93
46 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (45 bp):
AAATGAATAAATTAATCAAGAAAGCAAATTTTGCTAAAATACAAA
Found at i:9425677 original size:8 final size:7
Alignment explanation
Indices: 9425621--9425669 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 7
9425611 TGGCCTCTCC
9425621 TTTTTCTT
1 TTTTTC-T
9425629 TTTGTTCT
1 TTT-TTCT
9425637 TCTTTTCT
1 T-TTTTCT
9425645 TTTTTCAT
1 TTTTTC-T
*
9425653 TTTTTCA
1 TTTTTCT
9425660 TTTTTCT
1 TTTTTCT
9425667 TTT
1 TTT
9425670 CGTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 14 0.39
8 17 0.47
9 5 0.14
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:9427526 original size:62 final size:62
Alignment explanation
Indices: 9427422--9427543 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
9427412 CTAAACTCGA
* * *
9427422 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTAATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATAAAATGTAAAGTTAATGAATGAATG
* *
9427484 CGTATTTTTGGATTTTAGGAAATTTATTGTATGCAATAAAATGTAAAGTTGATGAATGAA
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATAAAATGTAAAGTTAATGAATGAA
9427544 AAGATACGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.40
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATAAAATGTAAAGTTAATGAATGAATG
Found at i:9437981 original size:18 final size:18
Alignment explanation
Indices: 9437950--9437987 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9437940 CCATCTCATC
*
9437950 TAATCTCTTTATTC-CAA
1 TAATCTCTTAATTCACAA
9437967 TAATGCTCTTAATTCACAA
1 TAAT-CTCTTAATTCACAA
9437986 TA
1 TA
9437988 CTCTACCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATCTCTTAATTCACAA
Found at i:9438746 original size:20 final size:21
Alignment explanation
Indices: 9438711--9438749 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9438701 AATATATAAG
9438711 ATTAACATACAAAAAATATTT
1 ATTAACATACAAAAAATATTT
*
9438732 ATTAA-ATATAAAAAATAT
1 ATTAACATACAAAAAATAT
9438750 ATATATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAACATACAAAAAATATTT
Found at i:9439191 original size:7 final size:7
Alignment explanation
Indices: 9439179--9439203 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9439169 GAAGAAAATC
9439179 AGACAAA
1 AGACAAA
9439186 AGACAAA
1 AGACAAA
9439193 AGACAAA
1 AGACAAA
9439200 AGAC
1 AGAC
9439204 CTAAAGTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (7 bp):
AGACAAA
Found at i:9443415 original size:76 final size:77
Alignment explanation
Indices: 9443288--9443440 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 77
9443278 TGGGGGGGGG
9443288 GGGTCAGAAATGTTACAGAGTTCGGGTCTCAATATGTTGCTTGATGTGATGCAAAACTTCATTTC
1 GGGTCAGAAATGTTACAGAGTTCGGGTCTCAATATGTTGCTTGATGTGATGCAAAACTTCATTTC
9443353 TACTATAATTTA
66 TACTATAATTTA
9443365 GGGTCAGAAA-GTTACAGAGTTCGGGTCTCAATATGTTGCTTGATGTGATGCAAAACTTCATTTC
1 GGGTCAGAAATGTTACAGAGTTCGGGTCTCAATATGTTGCTTGATGTGATGCAAAACTTCATTTC
9443429 TACTATAATTTA
66 TACTATAATTTA
9443441 TTCAGTGTAA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 66 0.87
77 10 0.13
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (77 bp):
GGGTCAGAAATGTTACAGAGTTCGGGTCTCAATATGTTGCTTGATGTGATGCAAAACTTCATTTC
TACTATAATTTA
Found at i:9462633 original size:14 final size:14
Alignment explanation
Indices: 9462614--9462642 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9462604 TTGTAAGTAA
9462614 AAGATATGTCACCC
1 AAGATATGTCACCC
9462628 AAGATATGTCACCC
1 AAGATATGTCACCC
9462642 A
1 A
9462643 TTCAAGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (14 bp):
AAGATATGTCACCC
Found at i:9466106 original size:18 final size:17
Alignment explanation
Indices: 9466080--9466113 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9466070 ATATTAACAC
9466080 ATAACTTTAAAACAATAA
1 ATAACTTTAAAA-AATAA
*
9466098 ATAATTTTAAAAAATA
1 ATAACTTTAAAAAATA
9466114 TAAAAAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAACTTTAAAAAATAA
Found at i:9466247 original size:24 final size:22
Alignment explanation
Indices: 9466190--9466248 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
9466180 ATAAAAATAA
9466190 TAAAAAATATTTTTTTCAAAATT
1 TAAAAAAT-TTTTTTTCAAAATT
* * *
9466213 TCAATATATTTTTTTCTTAAAATT
1 T-AAAAAATTTTTTT-TCAAAATT
9466237 CTAAAAAATTTT
1 -TAAAAAATTTT
9466249 AAAATTCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 7 0.25
24 20 0.71
25 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAAAAATTTTTTTTCAAAATT
Found at i:9471200 original size:29 final size:30
Alignment explanation
Indices: 9471168--9471226 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
9471158 ATTTGTTCAA
*
9471168 TGTGTAATATTATACAT-AAATTTTAATTT
1 TGTGTAATATTATACATAAAATATTAATTT
*
9471197 TGTGTAATTTTATACATAAAATATTAATTT
1 TGTGTAATATTATACATAAAATATTAATTT
9471227 GATTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (30 bp):
TGTGTAATATTATACATAAAATATTAATTT
Found at i:9471227 original size:29 final size:29
Alignment explanation
Indices: 9471168--9471251 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
9471158 ATTTGTTCAA
* *
9471168 TGTGTAATATTATACAT-AAATTTTAATTT
1 TGTGTAATTTTATACATAAAATATTAA-TT
9471197 TGTGTAATTTTATACATAAAATATTAATT
1 TGTGTAATTTTATACATAAAATATTAATT
* *
9471226 TGAT-TAAATTT-TA-ATAAATTATTAAT
1 TG-TGTAATTTTATACATAAAATATTAAT
9471252 ATAATTATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.24
28 2 0.04
29 26 0.53
30 9 0.18
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (29 bp):
TGTGTAATTTTATACATAAAATATTAATT
Found at i:9471367 original size:181 final size:182
Alignment explanation
Indices: 9471159--9471524 Score: 725
Period size: 181 Copynumber: 2.0 Consensus size: 182
9471149 CTCATAAACA
9471159 TTTGTTCAATGTGTAATATTATACATAAATTTTAATTTTGTGTAATTTTATACATAAAATATTAA
1 TTTGTTCAATGTGTAATATTATACATAAATTTTAATTTTGTGTAATTTTATACATAAAATATTAA
9471224 TTTGATTAAATTTTAATAAATTATTAATATAATTATCATTATAATTTCATTTTAAACATACATAT
66 TTTGATTAAATTTTAATAAATTATTAATATAATTATCATTATAATTTCATTTTAAACATACATAT
9471289 TGCAATACGAATAATTATATATATCTAATATAAAATGATTTCATGTATTTAT
131 TGCAATACGAATAATTATATATATCTAATATAAAATGATTTCATGTATTTAT
9471341 TTTGTTCAATG-GTAATATTATACATAAATTTTAATTTTGTGTAATTTTATACATAAAATATTAA
1 TTTGTTCAATGTGTAATATTATACATAAATTTTAATTTTGTGTAATTTTATACATAAAATATTAA
9471405 TTTGATTAAATTTTAATAAATTATTAATATAATTATCATTATAATTTCATTTTAAACATACATAT
66 TTTGATTAAATTTTAATAAATTATTAATATAATTATCATTATAATTTCATTTTAAACATACATAT
9471470 TGCAATACGAATAATTATATATATCTAATATAAAATGATTTCATGTATTTAT
131 TGCAATACGAATAATTATATATATCTAATATAAAATGATTTCATGTATTTAT
9471522 TTT
1 TTT
9471525 TTAAAATGTA
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 173 0.94
182 11 0.06
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (182 bp):
TTTGTTCAATGTGTAATATTATACATAAATTTTAATTTTGTGTAATTTTATACATAAAATATTAA
TTTGATTAAATTTTAATAAATTATTAATATAATTATCATTATAATTTCATTTTAAACATACATAT
TGCAATACGAATAATTATATATATCTAATATAAAATGATTTCATGTATTTAT
Found at i:9471408 original size:29 final size:30
Alignment explanation
Indices: 9471352--9471432 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
9471342 TTGTTCAATG
* *
9471352 GTAATATTATACAT-AAATTTTAATTTTG-T
1 GTAATTTTATACATAAAATATTAA-TTTGAT
9471381 GTAATTTTATACATAAAATATTAATTTGAT
1 GTAATTTTATACATAAAATATTAATTTGAT
* *
9471411 -TAAATTT-TA-ATAAATTATTAAT
1 GTAATTTTATACATAAAATATTAAT
9471433 ATAATTATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.26
28 2 0.04
29 23 0.50
30 9 0.20
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
GTAATTTTATACATAAAATATTAATTTGAT
Found at i:9473592 original size:15 final size:14
Alignment explanation
Indices: 9473574--9473603 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9473564 AGTTTTTCTC
9473574 TTCTTCTTTTTTTTT
1 TTCTT-TTTTTTTTT
9473589 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
9473603 T
1 T
9473604 GAATTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:9473594 original size:12 final size:12
Alignment explanation
Indices: 9473577--9473602 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9473567 TTTTCTCTTC
9473577 TTCTTTTTTTTT
1 TTCTTTTTTTTT
9473589 TTCTTTTTTTTT
1 TTCTTTTTTTTT
9473601 TT
1 TT
9473603 TGAATTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:9483178 original size:17 final size:19
Alignment explanation
Indices: 9483158--9483200 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
9483148 AAAAGAATCT
*
9483158 AAACAAAACCA-GACAT-C
1 AAACAAAACCACCACATCC
*
9483175 AAACCAAACCACCACATCC
1 AAACAAAACCACCACATCC
9483194 AAACAAA
1 AAACAAA
9483201 CTTGCCAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.58, C:0.35, G:0.02, T:0.05
Consensus pattern (19 bp):
AAACAAAACCACCACATCC
Found at i:9496630 original size:105 final size:105
Alignment explanation
Indices: 9496445--9496636 Score: 267
Period size: 105 Copynumber: 1.8 Consensus size: 105
9496435 ATCTCAGCAG
* * *
9496445 TCACAAAATAAAAGCAAGAAGCCAAGAAGGAACCTAAAAATGAAATGAGCTGAAATGATCGGCAA
1 TCACAAAATAAAAGCAAGAAGCCAAGAAGGAACCTAAAAATGAAATGAGCTAAAATGACCAGCAA
* *
9496510 AAAGATACACTTTTGAATGAAAACTCGAGCAACACAACAA
66 AAAGATACACCTTTGAAAGAAAACTCGAGCAACACAACAA
* * * * * *
9496550 TCACAAAGTAAAATCAAGAAGCCGAGGAGGAATCTAAAAATGAAATGAGCTAAAATGACCAGCAC
1 TCACAAAATAAAAGCAAGAAGCCAAGAAGGAACCTAAAAATGAAATGAGCTAAAATGACCAGCAA
**
9496615 AAAGATATGCCTTTGAAAGAAA
66 AAAGATACACCTTTGAAAGAAA
9496637 GCTCTTCGGT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 74 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.15
Consensus pattern (105 bp):
TCACAAAATAAAAGCAAGAAGCCAAGAAGGAACCTAAAAATGAAATGAGCTAAAATGACCAGCAA
AAAGATACACCTTTGAAAGAAAACTCGAGCAACACAACAA
Found at i:9500449 original size:63 final size:63
Alignment explanation
Indices: 9500347--9500479 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
9500337 ATCCTCTTCA
* * *
9500347 CAGAAACTGTCCAGAATGTGGCCGCTTACCATTGTACTTGAGACAGACCAGATCAGGGGTGAG
1 CAGAAACTGTCCAGAATGTGGCCACTTACCATTGAACTTGAGACAGACCAGATCAGGGATGAG
* * *
9500410 CAGAAACTGTCTAGAATGTGGGCACTTACCATTGAACTTGAGACAGACCAGATTAGGGATGAG
1 CAGAAACTGTCCAGAATGTGGCCACTTACCATTGAACTTGAGACAGACCAGATCAGGGATGAG
9500473 CAGAAAC
1 CAGAAAC
9500480 CGGAGATAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (63 bp):
CAGAAACTGTCCAGAATGTGGCCACTTACCATTGAACTTGAGACAGACCAGATCAGGGATGAG
Found at i:9510945 original size:103 final size:103
Alignment explanation
Indices: 9510764--9510967 Score: 349
Period size: 103 Copynumber: 2.0 Consensus size: 103
9510754 CAGCTTGGCA
*
9510764 TAAGATTCTTTTTCTTTTTCCTTTTTTCTCTTTTTCTCTGTGTATAACCAGAGTTATATTGCTCT
1 TAAGATTCTTTTTCTTTTTCCTTTTTTCTCTTTTTCTCTGTGTATAACCAGAGTTATATTGCTCG
* *
9510829 GTCAACTTTGAGATTTTAAAAGAAATGCATATGACTAT
66 GTCAACCTCGAGATTTTAAAAGAAATGCATATGACTAT
9510867 TAAGATTCTTTTT-TTTTTCCTTTTTGTCTCTTTTTCT-TCGTGTATAACCAGAGTTATATTGCT
1 TAAGATTCTTTTTCTTTTTCCTTTTT-TCTCTTTTTCTCT-GTGTATAACCAGAGTTATATTGCT
9510930 CGGTCAACCTCGAGATTTTAAAAGAAATGCATATGACT
64 CGGTCAACCTCGAGATTTTAAAAGAAATGCATATGACT
9510968 CTTACAAAGT
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
102 13 0.14
103 83 0.86
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (103 bp):
TAAGATTCTTTTTCTTTTTCCTTTTTTCTCTTTTTCTCTGTGTATAACCAGAGTTATATTGCTCG
GTCAACCTCGAGATTTTAAAAGAAATGCATATGACTAT
Found at i:9512251 original size:190 final size:190
Alignment explanation
Indices: 9511928--9512301 Score: 658
Period size: 190 Copynumber: 2.0 Consensus size: 190
9511918 GTCATCTCAG
* *
9511928 AATCCCTGTACAATAAGCTTAGATCCCGCTCTTATGACAAAAGAAACCAGATAGTATCAATGCCC
1 AATCCCTGTACAATAAGCTTAGATCCCCCTCTTATGACAAAAGAAACCAGACAGTATCAATGCCC
*
9511993 GTATATAACCTTAAGAAAAATGAGAGAAATAGAGATAAAGCAAAATGTTGGTAAAAAACCTTCAC
66 GTATATAACCTAAAGAAAAATGAGAGAAATAGAGATAAAGCAAAATGTTGGTAAAAAACCTTCAC
* *
9512058 ATAAATGAAACTAAAGCAATATTCTATCTAATTTTTATTTCAGATATTTCTTTATTTCAA
131 ATAAATGAAACTAAAGAAATATCCTATCTAATTTTTATTTCAGATATTTCTTTATTTCAA
9512118 AATCCCTGTACAATAAGCTTAGATCCCCCTCTTATGACAAAAGAAACCAGACAGTATCAATGCCC
1 AATCCCTGTACAATAAGCTTAGATCCCCCTCTTATGACAAAAGAAACCAGACAGTATCAATGCCC
* * **
9512183 TTATATAACCTAAAGAAAAATGAGAGAAATAGAGATAAAGCAAAATGTTGGTAGAAGCCCTTCAC
66 GTATATAACCTAAAGAAAAATGAGAGAAATAGAGATAAAGCAAAATGTTGGTAAAAAACCTTCAC
*
9512248 ATAAATGAAATTAAAGAAATATCCTATCTAATTTTTATTTCAGATATTTCTTTA
131 ATAAATGAAACTAAAGAAATATCCTATCTAATTTTTATTTCAGATATTTCTTTA
9512302 GAGATCTTGT
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 174 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (190 bp):
AATCCCTGTACAATAAGCTTAGATCCCCCTCTTATGACAAAAGAAACCAGACAGTATCAATGCCC
GTATATAACCTAAAGAAAAATGAGAGAAATAGAGATAAAGCAAAATGTTGGTAAAAAACCTTCAC
ATAAATGAAACTAAAGAAATATCCTATCTAATTTTTATTTCAGATATTTCTTTATTTCAA
Found at i:9512637 original size:23 final size:24
Alignment explanation
Indices: 9512595--9512639 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9512585 TACATGATTC
9512595 AAACAACTTAGAAATAGATAACTT
1 AAACAACTTAGAAATAGATAACTT
9512619 AAACAACTTAG-AATAGATAAC
1 AAACAACTTAGAAATAGATAAC
9512640 AGTAGTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (24 bp):
AAACAACTTAGAAATAGATAACTT
Found at i:9519224 original size:16 final size:16
Alignment explanation
Indices: 9519203--9519241 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9519193 CGATTTGTAA
9519203 TAAATATTT-AATTATT
1 TAAATATTTCAA-TATT
9519219 TAAATATTTCAATATT
1 TAAATATTTCAATATT
9519235 TATAATA
1 TA-AATA
9519242 AATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATATTTCAATATT
Found at i:9526757 original size:27 final size:28
Alignment explanation
Indices: 9526711--9526763 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
9526701 TTTTATTTTA
*
9526711 AAAATTAGTATGGTATAAAACATCATGT
1 AAAATTAGTATAGTATAAAACATCATGT
9526739 AAAATTAG-ATAGTATAAAACATCAT
1 AAAATTAGTATAGTATAAAACATCAT
9526764 ATATTTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (28 bp):
AAAATTAGTATAGTATAAAACATCATGT
Found at i:9536070 original size:222 final size:222
Alignment explanation
Indices: 9535684--9536100 Score: 762
Period size: 222 Copynumber: 1.9 Consensus size: 222
9535674 AACAACCTTA
*
9535684 TTGTCTATTTTGCTACGTAAATGATCAGGCACAAATACATAGCAAACATATCCGAAAACTCTAAA
1 TTGTCTATTTTGCTACGTAAATAATCAGGCACAAATACATAGCAAACATATCCGAAAACTCTAAA
* *
9535749 ATAACTAACTGAAGGTTTTATGTTGCATAATTTTTCAAAAGGTGAAATAAAACATAACCTTTGTT
66 ATAACTAACTGAAGGTTTCATGTTGCAAAATTTTTCAAAAGGTGAAATAAAACATAACCTTTGTT
* *
9535814 GAGGAAGCCTATTGATTACAAATGCAGCCGTCCTCATTGCTTCTGCCCAAAAATGTCCTGGTACA
131 GAGAAAGCCTATTGATTACAAATGCAGCCGTCCTCATTGCTTCTGCCCAAAAACGTCCTGGTACA
9535879 CTATGAAGGTTTCACGTTGCATAATTT
196 CTATGAAGGTTTCACGTTGCATAATTT
* *
9535906 TTGTCTATTTTGCTACGTAAATAATCAGGTACAAATACATAGCAAACATATCCGAAAACTCTGAA
1 TTGTCTATTTTGCTACGTAAATAATCAGGCACAAATACATAGCAAACATATCCGAAAACTCTAAA
*
9535971 ATAACTAATTGAAGGTTTCATGTTGCAAAATTTTTCAAAAGGTGAAATAAAACATAACCTTTGTT
66 ATAACTAACTGAAGGTTTCATGTTGCAAAATTTTTCAAAAGGTGAAATAAAACATAACCTTTGTT
9536036 GAGAAAGCCTATTGATTACAAATGCAGCCGTCCTCATTGCTTCTGCCCAAAAACGTCCTGGTACA
131 GAGAAAGCCTATTGATTACAAATGCAGCCGTCCTCATTGCTTCTGCCCAAAAACGTCCTGGTACA
9536101 TTCTTCGCGT
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
222 187 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (222 bp):
TTGTCTATTTTGCTACGTAAATAATCAGGCACAAATACATAGCAAACATATCCGAAAACTCTAAA
ATAACTAACTGAAGGTTTCATGTTGCAAAATTTTTCAAAAGGTGAAATAAAACATAACCTTTGTT
GAGAAAGCCTATTGATTACAAATGCAGCCGTCCTCATTGCTTCTGCCCAAAAACGTCCTGGTACA
CTATGAAGGTTTCACGTTGCATAATTT
Found at i:9542414 original size:25 final size:24
Alignment explanation
Indices: 9542377--9542423 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
9542367 GTAGGGGATT
9542377 TTATTTTATTTAAGATTAATATGA
1 TTATTTTATTTAAGATTAATATGA
*
9542401 TTATATTTATTTAATATTAATAT
1 TTAT-TTTATTTAAGATTAATAT
9542424 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAAGATTAATATGA
Found at i:9543049 original size:6 final size:6
Alignment explanation
Indices: 9543038--9543073 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
9543028 CTACTTCTTT
*
9543038 CAATTC CAATTC CAATTC CAATTC CAATTC CCATTC
1 CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC
9543074 TCTCCCATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (6 bp):
CAATTC
Found at i:9547232 original size:22 final size:22
Alignment explanation
Indices: 9547207--9547251 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9547197 CATAAAACCT
* *
9547207 ACAAACCATAGACCCTAAAAAC
1 ACAAACAATAAACCCTAAAAAC
9547229 ACAAACAATAAACCCTAAAAAC
1 ACAAACAATAAACCCTAAAAAC
9547251 A
1 A
9547252 ATAAAACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.29, G:0.02, T:0.09
Consensus pattern (22 bp):
ACAAACAATAAACCCTAAAAAC
Found at i:9547252 original size:16 final size:16
Alignment explanation
Indices: 9547231--9547262 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9547221 CTAAAAACAC
*
9547231 AAACAATAAACCCTAA
1 AAACAATAAAACCTAA
9547247 AAACAATAAAACCTAA
1 AAACAATAAAACCTAA
9547263 CCATAAACCC
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:0.66, C:0.22, G:0.00, T:0.12
Consensus pattern (16 bp):
AAACAATAAAACCTAA
Found at i:9547327 original size:21 final size:22
Alignment explanation
Indices: 9547297--9547341 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9547287 CCTAAAATAT
*
9547297 AACCCAT-AAATCCTAAACCCTA
1 AACCCATAAAAT-ATAAACCCTA
9547319 AACCC-TAAAATATAAACCCTA
1 AACCCATAAAATATAAACCCTA
9547340 AA
1 AA
9547342 AAGACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCATAAAATATAAACCCTA
Found at i:9547534 original size:21 final size:21
Alignment explanation
Indices: 9547505--9547563 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
9547495 TAAAAACACA
*
9547505 AAAACATAAACCCTAGAA-CCT
1 AAAACATAAACACTA-AACCCT
* *
9547526 AAAATATAAATACTAAACCCT
1 AAAACATAAACACTAAACCCT
*
9547547 AAAACATAAACAATAAA
1 AAAACATAAACACTAAA
9547564 AAATAAAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAACATAAACACTAAACCCT
Found at i:9547556 original size:14 final size:14
Alignment explanation
Indices: 9547505--9547599 Score: 59
Period size: 14 Copynumber: 6.7 Consensus size: 14
9547495 TAAAAACACA
9547505 AAAACATAAACCCT
1 AAAACATAAACCCT
* * ***
9547519 AGAACCTAAAATAT
1 AAAACATAAACCCT
9547533 AAATAC-TAAACCCT
1 AAA-ACATAAACCCT
**
9547547 AAAACATAAACAAT
1 AAAACATAAACCCT
* *
9547561 AAAAAATAAAATCCT
1 AAAACAT-AAACCCT
*
9547576 AAAACCACAAACCCT
1 AAAA-CATAAACCCT
9547591 -AAACATAAA
1 AAAACATAAA
9547600 AACATAAAAC
Statistics
Matches: 58, Mismatches: 19, Indels: 9
0.67 0.22 0.10
Matches are distributed among these distances:
13 7 0.12
14 34 0.59
15 16 0.28
16 1 0.02
ACGTcount: A:0.61, C:0.22, G:0.01, T:0.16
Consensus pattern (14 bp):
AAAACATAAACCCT
Found at i:9547581 original size:37 final size:35
Alignment explanation
Indices: 9547526--9547608 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 35
9547516 CCTAGAACCT
9547526 AAAATATAAATACTAAACC-CTAAAACATAAACAATAA
1 AAAATA-AAATACTAAACCAC-AAAACATAAAC-ATAA
* * *
9547563 AAAATAAAATCCTAAAACCACAAACCCTAAACATAA
1 AAAATAAAATACT-AAACCACAAAACATAAACATAA
9547599 AAACATAAAA
1 AAA-ATAAAA
9547609 CATTAAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 13 0.32
37 26 0.65
38 1 0.03
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (35 bp):
AAAATAAAATACTAAACCACAAAACATAAACATAA
Found at i:9547607 original size:44 final size:44
Alignment explanation
Indices: 9547540--9547667 Score: 118
Period size: 44 Copynumber: 2.9 Consensus size: 44
9547530 TATAAATACT
*
9547540 AAACCCTAAAACATAAACAATAAAA-AATAAAATCCTAA-AACCAC
1 AAACCCTAAAACATAAAAAATAAAACAATAAAA-CCTAACAA-CAC
*
9547584 AAACCCT-AAACATAAAAACATAAAACATTAAAACCTAACAACAC
1 AAACCCTAAAACATAAAAA-ATAAAACAATAAAACCTAACAACAC
* ** * * *
9547628 AAGCAATAAACCCTAAAAACTATAAAACTATAAAACCTAA
1 AAACCCTAAAACATAAAAA--ATAAAACAATAAAACCTAA
9547668 ACCCTAAACC
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
43 10 0.14
44 25 0.36
45 17 0.25
46 17 0.25
ACGTcount: A:0.62, C:0.23, G:0.01, T:0.15
Consensus pattern (44 bp):
AAACCCTAAAACATAAAAAATAAAACAATAAAACCTAACAACAC
Found at i:9547647 original size:38 final size:37
Alignment explanation
Indices: 9547605--9547722 Score: 103
Period size: 38 Copynumber: 3.4 Consensus size: 37
9547595 ATAAAAACAT
9547605 AAAACATTAAAACCTAACAACACAAGCAATAAACCCTA
1 AAAACATTAAAACCTAACAACACAA-CAATAAACCCTA
9547643 AAAAC-TATAAAA-CTATA-AA-AC--C--TAAACCCT-
1 AAAACAT-TAAAACCTA-ACAACACAACAATAAACCCTA
* *
9547673 -AAACCTTAAAACCTAACAACACAAACAATGAACCCTA
1 AAAACATTAAAACCTAACAACAC-AACAATAAACCCTA
*
9547710 AAAACACTAAAAC
1 AAAACATTAAAAC
9547723 TATAAATCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 26
0.69 0.03 0.28
Matches are distributed among these distances:
29 10 0.16
30 6 0.09
31 10 0.16
33 1 0.02
34 1 0.02
36 9 0.14
37 6 0.09
38 21 0.33
ACGTcount: A:0.58, C:0.26, G:0.02, T:0.14
Consensus pattern (37 bp):
AAAACATTAAAACCTAACAACACAACAATAAACCCTA
Found at i:9547682 original size:67 final size:67
Alignment explanation
Indices: 9547606--9547735 Score: 208
Period size: 67 Copynumber: 1.9 Consensus size: 67
9547596 TAAAAACATA
*
9547606 AAACATTAAAACCTAACAACACAAGCAATAAACCCTAAAAACTA-TAAAACTATAAAACCTAAAC
1 AAACATTAAAACCTAACAACACAAACAATAAACCCTAAAAAC-ACTAAAACTATAAAACCTAAAC
9547670 CCT
65 CCT
* * *
9547673 AAACCTTAAAACCTAACAACACAAACAATGAACCCTAAAAACACTAAAACTATAAATCCTAAA
1 AAACATTAAAACCTAACAACACAAACAATAAACCCTAAAAACACTAAAACTATAAAACCTAAA
9547736 ACCATGAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.57, C:0.25, G:0.02, T:0.16
Consensus pattern (67 bp):
AAACATTAAAACCTAACAACACAAACAATAAACCCTAAAAACACTAAAACTATAAAACCTAAACC
CT
Found at i:9547736 original size:15 final size:15
Alignment explanation
Indices: 9547716--9547772 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
9547706 CCTAAAAACA
*
9547716 CTAAAACTATAAATC
1 CTAAAACCATAAATC
*
9547731 CTAAAACCATGAATC
1 CTAAAACCATAAATC
*
9547746 CTAAAACCATGAATC
1 CTAAAACCATAAATC
9547761 CTAAAA-CATAAA
1 CTAAAACCATAAA
9547773 CAATAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 5 0.13
15 34 0.87
ACGTcount: A:0.53, C:0.23, G:0.04, T:0.21
Consensus pattern (15 bp):
CTAAAACCATAAATC
Found at i:9547805 original size:22 final size:22
Alignment explanation
Indices: 9547760--9547837 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
9547750 AACCATGAAT
* *
9547760 CCTAAAACATAAACAAT-AAAA
1 CCTAAAATATAAACACTAAAAA
*
9547781 CCTAAAATATAAACCCTAAAAA
1 CCTAAAATATAAACACTAAAAA
9547803 CCTAAAATATAAACACTAAAAA
1 CCTAAAATATAAACACTAAAAA
*
9547825 -ATAAAATCATAAA
1 CCTAAAAT-ATAAA
9547838 ACCACAAACC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.40
22 30 0.60
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (22 bp):
CCTAAAATATAAACACTAAAAA
Found at i:9547865 original size:29 final size:28
Alignment explanation
Indices: 9547832--9548261 Score: 130
Period size: 28 Copynumber: 14.8 Consensus size: 28
9547822 AAAATAAAAT
*
9547832 CATAAAACCACAAACCCTAAACCCTAAGTA
1 CATAAAACCATAAACCCTAAACCCTAA--A
*
9547862 -ATAAAACTC-TAACCCCTAAACCCTAAA
1 CATAAAAC-CATAAACCCTAAACCCTAAA
* * **
9547889 CATAAAAACATAAACCCTAAGCAATAAAA
1 CATAAAACCATAAACCCTAAACCCT-AAA
* * *
9547918 CCAT-AAACCATAAATCATAAAACTCTAAA
1 -CATAAAACCATAAACCCT-AAACCCTAAA
* * **
9547947 CCCTAAAAACCATGAACATTAAACCCTAAA
1 -CAT-AAAACCATAAACCCTAAACCCTAAA
* * * **
9547977 AATACTAAACCCTAAA-CATAAACCAAAAA
1 CATA--AAACCATAAACCCTAAACCCTAAA
* * *
9548006 CCCT-CAA-CATAAAACCCTAAA--ATGAAA
1 -CATAAAACCAT-AAACCCTAAACCCT-AAA
* *
9548033 -AAAAAACA-TAAACCCTAAACCCTAAAAA
1 CATAAAACCATAAACCCTAAACCCT--AAA
* * *
9548061 CATAAAACCAAAAACTCTAAAACCATAAA
1 CATAAAACCATAAACCCT-AAACCCTAAA
* * *
9548090 CCCTAAAAAACC-TAAAACTTAAACCCTAAA
1 --C-ATAAAACCATAAACCCTAAACCCTAAA
* *
9548120 AATAAACCCATAAACCATAAACCATAAACCCTAAA
1 CAT------A-AAACCATAAACCCTAAACCCTAAA
* *
9548155 CATAAAATCATAAACCCTAAACCCTGAA
1 CATAAAACCATAAACCCTAAACCCTAAA
* *
9548183 CATAAAATCATAAACCCTAAA-CATAAA
1 CATAAAACCATAAACCCTAAACCCTAAA
* * *
9548210 CCCTAAAACTA-AAGACCATAAACCCTAAAAA
1 -CATAAAACCATAA-ACCCTAAACCCT--AAA
* * *
9548241 CACAAAACCCTAAACCTTAAA
1 CATAAAACCATAAACCCTAAA
9548262 AACACTAAAA
Statistics
Matches: 291, Mismatches: 70, Indels: 78
0.66 0.16 0.18
Matches are distributed among these distances:
25 10 0.03
26 6 0.02
27 18 0.06
28 82 0.28
29 64 0.22
30 54 0.19
31 26 0.09
32 7 0.02
33 1 0.00
34 5 0.02
35 18 0.06
ACGTcount: A:0.56, C:0.28, G:0.01, T:0.15
Consensus pattern (28 bp):
CATAAAACCATAAACCCTAAACCCTAAA
Found at i:9547868 original size:22 final size:22
Alignment explanation
Indices: 9547843--9547952 Score: 67
Period size: 22 Copynumber: 4.7 Consensus size: 22
9547833 ATAAAACCAC
9547843 AAACCCTAAACCCTAAGTAATA
1 AAACCCTAAACCCTAAGTAATA
* * *
9547865 AAACTCTAACCCCTAAACCCTAAACATA
1 AAACCCTAAACCCT-AA--GT--A-ATA
* * *
9547893 AAAACATAAACCCTAAGCAATA
1 AAACCCTAAACCCTAAGTAATA
* * * *
9547915 AAACCATAAACCATAAATCATA
1 AAACCCTAAACCCTAAGTAATA
*
9547937 AAACTCTAAACCCTAA
1 AAACCCTAAACCCTAA
9547953 AAACCATGAA
Statistics
Matches: 65, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
22 45 0.69
23 3 0.05
25 1 0.02
27 3 0.05
28 13 0.20
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (22 bp):
AAACCCTAAACCCTAAGTAATA
Found at i:9547953 original size:22 final size:20
Alignment explanation
Indices: 9547876--9548216 Score: 144
Period size: 21 Copynumber: 16.3 Consensus size: 20
9547866 AACTCTAACC
9547876 CCTAAACCCTAAACATAAAAA
1 CCTAAACCCTAAACAT-AAAA
* *
9547897 CATAAACCCTAAGCAATAAAA
1 CCTAAACCCTAAAC-ATAAAA
*
9547918 CCATAAACCATAAATCATAAAA
1 CC-TAAACCCTAAA-CATAAAA
*
9547940 CTCTAAACCCTAAAAACCAT-GAA
1 C-CTAAACCCT--AAA-CATAAAA
* *
9547963 CATTAAACCCT-AA-A-AATA
1 C-CTAAACCCTAAACATAAAA
9547981 -CTAAACCCTAAACAT-AAA
1 CCTAAACCCTAAACATAAAA
* *
9547999 CCAAAAACCCTCAACATAAAA
1 CC-TAAACCCTAAACATAAAA
* *
9548020 CCCTAAA--ATGAAA-AAAAAA
1 -CCTAAACCCT-AAACATAAAA
* *
9548039 CATAAACCCTAAACCCTAAAAA
1 CCTAAACCCTAAA-CAT-AAAA
* ** *
9548061 CATAAAACCAAAAACTCTAAAA
1 CCT-AAACCCTAAAC-ATAAAA
*
9548083 CCATAAACCCTAAAAAACCTAAAA
1 CC-TAAACCCT---AAACATAAAA
* * *
9548107 CTTAAACCCTAAAAATAAAC
1 CCTAAACCCTAAACATAAAA
* *
9548127 CCATAAACCATAAACCATAAAC
1 CC-TAAACCCTAAA-CATAAAA
* *
9548149 CCTAAA-CATAAAATCATAAAC
1 CCTAAACCCT-AAA-CATAAAA
*
9548170 CCTAAACCCTGAACATAAAA
1 CCTAAACCCTAAACATAAAA
* *
9548190 TCATAAACCCTAAACATAAAC
1 -CCTAAACCCTAAACATAAAA
9548211 CCTAAA
1 CCTAAA
9548217 ACTAAAGACC
Statistics
Matches: 245, Mismatches: 44, Indels: 63
0.70 0.12 0.18
Matches are distributed among these distances:
16 8 0.03
17 2 0.01
18 10 0.04
19 10 0.04
20 39 0.16
21 72 0.29
22 55 0.22
23 32 0.13
24 13 0.05
25 4 0.02
ACGTcount: A:0.56, C:0.27, G:0.01, T:0.16
Consensus pattern (20 bp):
CCTAAACCCTAAACATAAAA
Found at i:9548051 original size:7 final size:7
Alignment explanation
Indices: 9548041--9548261 Score: 65
Period size: 7 Copynumber: 30.6 Consensus size: 7
9548031 AAAAAAAACA
9548041 TAAACCC
1 TAAACCC
9548048 TAAACCC
1 TAAACCC
* *
9548055 TAAAAACA
1 T-AAACCC
*
9548063 TAAAACCA
1 T-AAACCC
* *
9548071 AAAACTC
1 TAAACCC
*
9548078 TAAAACCA
1 T-AAACCC
9548086 TAAACCC
1 TAAACCC
*
9548093 TAAAAAACC
1 T--AAACCC
* *
9548102 TAAAACT
1 TAAACCC
9548109 TAAACCC
1 TAAACCC
**
9548116 TAAA-AA
1 TAAACCC
9548122 TAAACCC
1 TAAACCC
*
9548129 ATAAACCA
1 -TAAACCC
*
9548137 TAAACCA
1 TAAACCC
9548144 TAAACCC
1 TAAACCC
*
9548151 TAAA-CA
1 TAAACCC
* *
9548157 TAAAATCA
1 T-AAACCC
9548165 TAAACCC
1 TAAACCC
9548172 TAAACCC
1 TAAACCC
* *
9548179 TGAA-CA
1 TAAACCC
* *
9548185 TAAAATCA
1 T-AAACCC
9548193 TAAACCC
1 TAAACCC
*
9548200 TAAA-CA
1 TAAACCC
9548206 TAAACCC
1 TAAACCC
*
9548213 TAAA-AC
1 TAAACCC
*
9548219 TAAAGACCA
1 T-AA-ACCC
9548228 TAAACCC
1 TAAACCC
*
9548235 TAAAAACAC
1 T--AAACCC
*
9548244 AAAACCC
1 TAAACCC
*
9548251 TAAACCT
1 TAAACCC
9548258 TAAA
1 TAAA
9548262 AACACTAAAA
Statistics
Matches: 159, Mismatches: 39, Indels: 32
0.69 0.17 0.14
Matches are distributed among these distances:
6 15 0.09
7 101 0.64
8 31 0.19
9 12 0.08
ACGTcount: A:0.56, C:0.28, G:0.01, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:9548068 original size:23 final size:22
Alignment explanation
Indices: 9548034--9548119 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 22
9548024 AAAATGAAAA
9548034 AAAAACATAAACCCTAAACCCT
1 AAAAACATAAACCCTAAACCCT
** *
9548056 AAAAACATAAAACCAAAAACTCT
1 AAAAACAT-AAACCCTAAACCCT
* *
9548079 AAAACCATAAACCCTAAAAAACCT
1 AAAAACATAAACCCT--AAACCCT
*
9548103 -AAAACTTAAACCCTAAA
1 AAAAACATAAACCCTAAA
9548120 AATAAACCCA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.06
22 13 0.25
23 30 0.59
24 5 0.10
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAACATAAACCCTAAACCCT
Found at i:9548157 original size:142 final size:142
Alignment explanation
Indices: 9547892--9548161 Score: 356
Period size: 142 Copynumber: 1.9 Consensus size: 142
9547882 CCCTAAACAT
* * *
9547892 AAAAACATAAACCCTAAGCAATAAAACCATAAACCATAAATCATAAAACTCTAAACCCTAAAAAC
1 AAAAACATAAACCCTAAACAATAAAAACATAAACCAAAAATCATAAAACTCTAAACCCTAAAAAC
* *
9547957 CATGAACATTAAACCCTAAAAATACTAAACCCTAAACATAAACCAAAAACCCTCAACATAAAACC
66 CATAAACATTAAACCCTAAAAATACTAAACCCTAAACATAAACCAAAAACCCTAAACATAAAACC
9548022 CTAAAATGAAAA
131 CTAAAATGAAAA
**
9548034 AAAAACATAAACCCTAAACCCTAAAAACATAAAACCAAAAACTC-TAAAAC-CATAAACCCTAAA
1 AAAAACATAAACCCTAAACAATAAAAACAT-AAACCAAAAA-TCATAAAACTC-TAAACCCT-AA
*
9548097 AAACC-TAAA-ACTTAAACCCT-AAAA-A-TAAACCCATAAACCATAAACCATAAACCCTAAACA
62 AAACCATAAACA-TTAAACCCTAAAAATACTAAACCC-TAAA-CATAAACCAAAAACCCTAAACA
9548157 TAAAA
124 TAAAA
9548162 TCATAAACCC
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
140 7 0.06
141 5 0.04
142 57 0.50
143 35 0.31
144 9 0.08
ACGTcount: A:0.58, C:0.26, G:0.01, T:0.15
Consensus pattern (142 bp):
AAAAACATAAACCCTAAACAATAAAAACATAAACCAAAAATCATAAAACTCTAAACCCTAAAAAC
CATAAACATTAAACCCTAAAAATACTAAACCCTAAACATAAACCAAAAACCCTAAACATAAAACC
CTAAAATGAAAA
Found at i:9548218 original size:21 final size:21
Alignment explanation
Indices: 9548110--9548292 Score: 85
Period size: 21 Copynumber: 8.5 Consensus size: 21
9548100 CCTAAAACTT
*
9548110 AAACCCTAAAAATAAACCC-A
1 AAACCCTAAACATAAACCCTA
*
9548130 TAAACCATAAACCATAAACCCT-
1 -AAACCCTAAA-CATAAACCCTA
*
9548152 AAA-CATAAAATCATAAACCCT-
1 AAACCCT-AAA-CATAAACCCTA
* **
9548173 AAACCCTGAACATAAAATC-A
1 AAACCCTAAACATAAACCCTA
9548193 TAAACCCTAAACATAAACCCTA
1 -AAACCCTAAACATAAACCCTA
9548215 AAA--CTAAAGACCATAAACCCTAA
1 AAACCCT-AA-A-CATAAACCCT-A
* * * *
9548238 AAACACAAAACCCTAAACCTTA
1 AAACCCTAAA-CATAAACCCTA
* **
9548260 AAAACACTAAA-ATCATCCCCTA
1 AA-ACCCTAAACAT-AAACCCTA
9548282 AAACCCTAAAC
1 AAACCCTAAAC
9548293 CTCTAAACTT
Statistics
Matches: 127, Mismatches: 19, Indels: 31
0.72 0.11 0.18
Matches are distributed among these distances:
19 2 0.02
20 12 0.09
21 58 0.46
22 31 0.24
23 21 0.17
24 2 0.02
25 1 0.01
ACGTcount: A:0.54, C:0.30, G:0.01, T:0.15
Consensus pattern (21 bp):
AAACCCTAAACATAAACCCTA
Found at i:9548254 original size:23 final size:23
Alignment explanation
Indices: 9548204--9548271 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
9548194 AAACCCTAAA
*
9548204 CATAAACCCT-AAAACTA-AAGAC
1 CATAAACCCTAAAAAC-ACAAAAC
9548226 CATAAACCCTAAAAACACAAAAC
1 CATAAACCCTAAAAACACAAAAC
* *
9548249 CCTAAACCTTAAAAACACTAAAA
1 CATAAACCCTAAAAACAC-AAAA
9548272 TCATCCCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.28
23 25 0.62
24 4 0.10
ACGTcount: A:0.57, C:0.28, G:0.01, T:0.13
Consensus pattern (23 bp):
CATAAACCCTAAAAACACAAAAC
Found at i:9549763 original size:30 final size:30
Alignment explanation
Indices: 9549729--9549790 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
9549719 TACTATTCTT
9549729 CACTGTTATAACCATCACACCGCAGGAGCA
1 CACTGTTATAACCATCACACCGCAGGAGCA
9549759 CACTGTTATAACCATCACACCGCAGGAGCA
1 CACTGTTATAACCATCACACCGCAGGAGCA
9549789 CA
1 CA
9549791 ATTATAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (30 bp):
CACTGTTATAACCATCACACCGCAGGAGCA
Found at i:9555253 original size:19 final size:22
Alignment explanation
Indices: 9555217--9555260 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9555207 TTCATCCTAC
9555217 TTTTAATATATATTTAAAA-TA
1 TTTTAATATATATTTAAAATTA
9555238 TTTTAATA-AT-TTTAAAATTA
1 TTTTAATATATATTTAAAATTA
9555258 TTT
1 TTT
9555261 GTTGACGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAATATATATTTAAAATTA
Found at i:9556992 original size:17 final size:17
Alignment explanation
Indices: 9556972--9557006 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9556962 TCCTTCAATT
*
9556972 TTTGTTCTCCTAATTGG
1 TTTGTTCCCCTAATTGG
9556989 TTTGTTCCCCTAATTGG
1 TTTGTTCCCCTAATTGG
9557006 T
1 T
9557007 AACTTTGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (17 bp):
TTTGTTCCCCTAATTGG
Found at i:9557687 original size:84 final size:83
Alignment explanation
Indices: 9557503--9558212 Score: 883
Period size: 84 Copynumber: 8.5 Consensus size: 83
9557493 AAGGAAGGTG
* * * *
9557503 GTTGAAGAAAGAAAAGGTGCTGATTCGGAGATGGCTAAAGCAAAGGAGCAGAGGAAGTTTGTC-G
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTG-CAG
* *
9557567 AAAAATCTAAG-A-AA-GCT
65 AAGAAT-GAAGAAGAAGGCT
* * * *
9557584 GTTGAAGATAGAAAATGTGCTGATCTGGAGATGGCTAAAGCACAGGAGGAGAGGAAGGTTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
9557649 AGAGATGAAGAAGAAGGCT
66 AGA-ATGAAGAAGAAGGCT
* * *
9557668 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATTGCTAAAGCACAGGAGCAAAGGAAGACTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
9557733 AGAATTGAAGAAGAAGGCT
66 AGAA-TGAAGAAGAAGGCT
* * *
9557752 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATTGCTAAAGCACAGGAGAAGAGGAAGACTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
9557817 AGAATTGAAGAAGAAGGCT
66 AGAA-TGAAGAAGAAGGCT
* * *
9557836 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATTGCTAAAGCACAGGAGAAGAGGAAGACTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
*
9557901 AGAATTGAAGAAGAAGGTT
66 AGAA-TGAAGAAGAAGGCT
** *
9557920 GTTGAAGAAAGAAAACATGCTGCTTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
* *
9557985 AGAGTCGAAGAAGAAGGTT
66 AGAAT-GAAGAAGAAGGCT
* *
9558004 GTTGAAGAAAGAAAACATGTG--GCTTTGGAGATGGCTAAAGCACAGGAGCAGAAGAAGATTGCA
1 GTTGAAGAAAG-AAA-ATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCA
* *
9558067 GAAGAGATTAAGAAGAAGGCA
64 GAAGA-ATGAAGAAGAAGGCT
** ** * ** * *
9558088 GTTGAAGAAAGAAAACATGCTGATTTACAGATGGCTGAAGCGGAGGCGCAAAGGAAGATTGCAGA
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
**
9558153 AGAAACCAAGAAGAAGGCT
66 AG-AATGAAGAAGAAGGCT
* * * *
9558172 GTTGAAGCAAGAAAATGTGCCGATTTTGAGATCGCTAAAGC
1 GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGC
9558213 GGAAGCAACT
Statistics
Matches: 561, Mismatches: 55, Indels: 23
0.88 0.09 0.04
Matches are distributed among these distances:
80 1 0.00
81 61 0.11
82 6 0.01
83 7 0.01
84 478 0.85
85 5 0.01
86 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.32, T:0.17
Consensus pattern (83 bp):
GTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGATTGCAGA
AGAATGAAGAAGAAGGCT
Found at i:9572711 original size:2 final size:2
Alignment explanation
Indices: 9572704--9572731 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9572694 ATAATGATTC
9572704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9572732 GAAAGCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9575442 original size:98 final size:100
Alignment explanation
Indices: 9575309--9575507 Score: 384
Period size: 98 Copynumber: 2.0 Consensus size: 100
9575299 AGAAACAAGG
9575309 ATGGGTAAACCTCTCATTTTTTTTTTTTTGCTGCAAAATCAACTTTGATTCAGCTGACTCGATTC
1 ATGGGTAAACCTCTCATTTTTTTTTTTTTGCTGCAAAATCAACTTTGATTCAGCTGACTCGATTC
9575374 TGCACTGTCCTTCCTATATGTGCTGTATTTATAGA
66 TGCACTGTCCTTCCTATATGTGCTGTATTTATAGA
9575409 ATGGGTAAA-C-CTCATTTTTTTTTTTTTGCTGCAAAATCAACTTTGATTCAGCTGACTCGATTC
1 ATGGGTAAACCTCTCATTTTTTTTTTTTTGCTGCAAAATCAACTTTGATTCAGCTGACTCGATTC
9575472 TGCACTGTCCTTCCTATATGTGCTGTATTTATAGA
66 TGCACTGTCCTTCCTATATGTGCTGTATTTATAGA
9575507 A
1 A
9575508 AATTAATACA
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 89 0.90
99 1 0.01
100 9 0.09
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (100 bp):
ATGGGTAAACCTCTCATTTTTTTTTTTTTGCTGCAAAATCAACTTTGATTCAGCTGACTCGATTC
TGCACTGTCCTTCCTATATGTGCTGTATTTATAGA
Found at i:9583858 original size:32 final size:32
Alignment explanation
Indices: 9583797--9583859 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
9583787 ACAAAACATA
* *
9583797 ACAAGCAACCCATAAAACTTACTTTATCACAG
1 ACAAGCAACCCATAAAACGTACTTCATCACAG
*
9583829 ACAAGCAATCCATAAAACGTA-TTCCATCACA
1 ACAAGCAACCCATAAAACGTACTT-CATCACA
9583860 TACTATTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (32 bp):
ACAAGCAACCCATAAAACGTACTTCATCACAG
Found at i:9583938 original size:32 final size:32
Alignment explanation
Indices: 9583893--9583955 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
9583883 GCAGAACATA
* *
9583893 ACAAGCAACCCATAAAACTTATTTTATCACAG
1 ACAAGCAACCCATAAAACATATTTCATCACAG
**
9583925 ACAAGCATTCCATAAAACATATTTCATCACA
1 ACAAGCAACCCATAAAACATATTTCATCACA
9583956 TACTATTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.25
Consensus pattern (32 bp):
ACAAGCAACCCATAAAACATATTTCATCACAG
Found at i:9583955 original size:96 final size:97
Alignment explanation
Indices: 9583791--9583983 Score: 343
Period size: 96 Copynumber: 2.0 Consensus size: 97
9583781 CCATAAACAA
*
9583791 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTCCAT
1 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACATATTCCAT
9583856 CACATACTA-TTAGCTTAAGAGATGTAAGCAG
66 CACATACTATTTAGCTTAAGAGATGTAAGCAG
* * *
9583887 AACATAACAAGCAACCCATAAAACTTATTTTATCACAGACAAGCATTCCATAAAACATATTTCAT
1 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACATATTCCAT
9583952 CACATACTATTTAGCTTAAGAGATGTAAGCAG
66 CACATACTATTTAGCTTAAGAGATGTAAGCAG
9583984 GCAATCCACC
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 70 0.76
97 22 0.24
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.25
Consensus pattern (97 bp):
AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACATATTCCAT
CACATACTATTTAGCTTAAGAGATGTAAGCAG
Found at i:9584937 original size:22 final size:22
Alignment explanation
Indices: 9584912--9584968 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
9584902 ACAAAAATTG
9584912 AAACATTAACCTTGAAATCTTA
1 AAACATTAACCTTGAAATCTTA
* *
9584934 AAACATTACCCTTGAAATCTTC
1 AAACATTAACCTTGAAATCTTA
*
9584956 AAACCTTAACCTT
1 AAACATTAACCTT
9584969 ATTAATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (22 bp):
AAACATTAACCTTGAAATCTTA
Found at i:9593678 original size:23 final size:22
Alignment explanation
Indices: 9593642--9593692 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 22
9593632 ATTCTGACAA
9593642 CTCTCAAAACCTTACTGCTTTGCTT
1 CTCTCAAAACCTTA-TG-TTT-CTT
9593667 CTCT-AAAA-CTTATGTTTCTT
1 CTCTCAAAACCTTATGTTTCTT
9593687 CTCTCA
1 CTCTCA
9593693 GGTGTAGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 2 0.08
23 4 0.16
24 4 0.16
25 4 0.16
ACGTcount: A:0.22, C:0.29, G:0.06, T:0.43
Consensus pattern (22 bp):
CTCTCAAAACCTTATGTTTCTT
Found at i:9597172 original size:32 final size:32
Alignment explanation
Indices: 9597111--9597173 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
9597101 ACAAAACATA
* *
9597111 ACAAGCAACCCATAAAACTTACTTTATCACAG
1 ACAAGCAACCCATAAAACGTACTTCATCACAG
*
9597143 ACAAGCAATCCATAAAACGTA-TTCCATCACA
1 ACAAGCAACCCATAAAACGTACTT-CATCACA
9597174 TACTATTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (32 bp):
ACAAGCAACCCATAAAACGTACTTCATCACAG
Found at i:9597252 original size:32 final size:32
Alignment explanation
Indices: 9597207--9597269 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9597197 GCAGAACATA
* *
9597207 ACAAGCAACCCATAAAACTTATTTTATCACAG
1 ACAAGCAACCCATAAAACGTATTTCATCACAG
*
9597239 ACAAGCAATCCATAAAACGTATTTCATCACA
1 ACAAGCAACCCATAAAACGTATTTCATCACA
9597270 TACTATTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.24
Consensus pattern (32 bp):
ACAAGCAACCCATAAAACGTATTTCATCACAG
Found at i:9597269 original size:96 final size:97
Alignment explanation
Indices: 9597105--9597297 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 97
9597095 CCATAAACAA
9597105 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTCCAT
1 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTCCAT
9597170 CACATACTA-TTAGCTTAAGAGATGTAAGCAG
66 CACATACTATTTAGCTTAAGAGATGTAAGCAG
* *
9597201 AACATAACAAGCAACCCATAAAACTTATTTTATCACAGACAAGCAATCCATAAAACGTATTTCAT
1 AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTCCAT
9597266 CACATACTATTTAGCTTAAGAGATGTAAGCAG
66 CACATACTATTTAGCTTAAGAGATGTAAGCAG
9597298 GCAATCCACC
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 72 0.77
97 22 0.23
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (97 bp):
AACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTCCAT
CACATACTATTTAGCTTAAGAGATGTAAGCAG
Found at i:9598250 original size:22 final size:22
Alignment explanation
Indices: 9598225--9598281 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
9598215 ACAAAATTTG
9598225 AAACATTAACCTTGAAATCTTA
1 AAACATTAACCTTGAAATCTTA
9598247 AAACATTAACCTTGAAATCTTA
1 AAACATTAACCTTGAAATCTTA
*
9598269 AAACCTTAACCTT
1 AAACATTAACCTT
9598282 ATTAATATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.32
Consensus pattern (22 bp):
AAACATTAACCTTGAAATCTTA
Found at i:9601869 original size:26 final size:27
Alignment explanation
Indices: 9601840--9601911 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 27
9601830 GTACATTGTC
*
9601840 TATTTCTGATTT-TTTTTCTTGTTTT-T
1 TATTTC-GATTTCTTTTTCTTCTTTTAT
*
9601866 TA-TTCGTTTTCTTTTTCTTCTTTTAT
1 TATTTCGATTTCTTTTTCTTCTTTTAT
**
9601892 TATCACAGA-TTCTTTTTCTT
1 TATTTC-GATTTCTTTTTCTT
9601912 TCCGTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 4 0.11
25 15 0.41
26 5 0.14
27 12 0.32
28 1 0.03
ACGTcount: A:0.11, C:0.14, G:0.06, T:0.69
Consensus pattern (27 bp):
TATTTCGATTTCTTTTTCTTCTTTTAT
Found at i:9603874 original size:33 final size:33
Alignment explanation
Indices: 9603788--9603888 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 33
9603778 AAATAAAAAT
* *
9603788 AAATATTAATTA-AATCCTATT-AAAT-TTTTAA
1 AAATTTTAATTATAATTCT-TTAAAATATTTTAA
* * **
9603819 AAATTTTCATTATAATTTTTTAATTTATTTTAA
1 AAATTTTAATTATAATTCTTTAAAATATTTTAA
*
9603852 AAATTTTAATTA-AGTTACTTTAAAATA-TTTAA
1 AAATTTTAATTATAATT-CTTTAAAATATTTTAA
9603884 AAATT
1 AAATT
9603889 CTCATTAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
31 12 0.22
32 19 0.35
33 24 0.44
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (33 bp):
AAATTTTAATTATAATTCTTTAAAATATTTTAA
Found at i:9610322 original size:29 final size:29
Alignment explanation
Indices: 9610284--9610360 Score: 75
Period size: 32 Copynumber: 2.6 Consensus size: 29
9610274 CCTATTTTCT
*
9610284 CATTTGAGTACTTAAATTATTT-TTTATC
1 CATTTTAGTACTTAAATTATTTCTTTATC
* * *
9610312 ATATTTTAGTACTTGAACTTTTTTTTCTTTATC
1 -CATTTTAGTACTT-AA--ATTATTTCTTTATC
9610345 CATTTTAGTACTTAAA
1 CATTTTAGTACTTAAA
9610361 AGCTAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
29 11 0.29
30 2 0.05
31 2 0.05
32 17 0.45
33 6 0.16
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (29 bp):
CATTTTAGTACTTAAATTATTTCTTTATC
Found at i:9615847 original size:3 final size:3
Alignment explanation
Indices: 9615839--9615883 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
9615829 TCGAGTGTAT
*
9615839 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9615884 GGGCTCCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9620196 original size:4 final size:4
Alignment explanation
Indices: 9620187--9620212 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9620177 TTATCCAAGG
9620187 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
9620213 TAGATAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:9626150 original size:5 final size:5
Alignment explanation
Indices: 9626142--9626166 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9626132 AAAAAAAAGG
9626142 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
9626167 CCACAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9630730 original size:126 final size:125
Alignment explanation
Indices: 9630457--9630748 Score: 426
Period size: 126 Copynumber: 2.3 Consensus size: 125
9630447 GCGTCCACAT
* *
9630457 GGGCATGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTTTATACTATTTGCTC
1 GGGCACGACTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTTTATACTATTTGCTC
** *
9630522 AGAAACTTCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGTGTCCACGA
66 AGAAACTTCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCACGTACACGA
* * *
9630582 GGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTATACTATTTGC
1 GGGCACGACTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGC--ATTTTTATACTATTTGC
* * *
9630647 TCAGAAA-TGTCAACTTGAAATTA-TTTTTGCAGGACCTACTGTAGCAAAAGCACGTACACGT
64 TCAGAAACT-TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCACGTACACGA
* *
9630708 GGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
1 GGGCACGACTTCACAAATTCTTCTGATAAAGCATCCTGCTT
9630749 TGATTTTATC
Statistics
Matches: 151, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
125 44 0.29
126 71 0.47
127 36 0.24
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (125 bp):
GGGCACGACTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTTTATACTATTTGCTC
AGAAACTTCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCACGTACACGA
Found at i:9632318 original size:14 final size:15
Alignment explanation
Indices: 9632288--9632320 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9632278 AATTTGATAA
*
9632288 TTTAATTTAAGAATT
1 TTTAATATAAGAATT
9632303 TTTAATATAA-AATT
1 TTTAATATAAGAATT
9632317 TTTA
1 TTTA
9632321 GCTTTGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTAATATAAGAATT
Found at i:9636398 original size:79 final size:80
Alignment explanation
Indices: 9636257--9636409 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 80
9636247 TATATCTGAG
* *
9636257 AGTAAATTTGCCAAAAAGATGTTCTACAATAACTCAATATCAACTACAGAACCACTAATAGAGGG
1 AGTAAATTTGCCAAAAAGATATTCTACAATAACTCAATATCAACAACAGAACCACTAATAGAGGG
*
9636322 GA-TTATGGGGAATA
66 AATTTATGGGGAATA
* * * * *
9636336 AGTATATTTGGCAAAAAGATATTCTAGAATAACTCAATATCAACAATAGAACCACTATTAGAGGG
1 AGTAAATTTGCCAAAAAGATATTCTACAATAACTCAATATCAACAACAGAACCACTAATAGAGGG
9636401 AATTTATGG
66 AATTTATGG
9636410 TCAATATTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 59 0.91
80 6 0.09
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (80 bp):
AGTAAATTTGCCAAAAAGATATTCTACAATAACTCAATATCAACAACAGAACCACTAATAGAGGG
AATTTATGGGGAATA
Found at i:9641138 original size:31 final size:31
Alignment explanation
Indices: 9641103--9641161 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9641093 TTAATTTTTT
* *
9641103 ATAAATATATAACTTTAATTAATGAATATAC
1 ATAAACATATAACTTTAATTAACGAATATAC
*
9641134 ATAAACATATAATTTTAATTAACGAATA
1 ATAAACATATAACTTTAATTAACGAATA
9641162 CATCATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (31 bp):
ATAAACATATAACTTTAATTAACGAATATAC
Found at i:9642762 original size:185 final size:186
Alignment explanation
Indices: 9642478--9642850 Score: 730
Period size: 185 Copynumber: 2.0 Consensus size: 186
9642468 AAGTTTAATT
9642478 ACAATGAAAAATTATTTAAATATTTTAAGATCATATCATTATAATTATAAACCACAAATATGGAC
1 ACAATGAAAAA-TATTTAAATATTTTAAGATCATATCATTATAATTATAAACCACAAATATGGAC
9642543 TTGCTTTTTTTTTCTAGCCTTAGAAAATATTATTAAAAAAACATTACAGGCATTGATACAATACT
65 TTGCTTTTTTTTTCTAGCCTTAGAAAATATTATTAAAAAAACATTACAGGCATTGATACAATACT
9642608 TGTAAGAATAATTACACACAAAAAATGAATAAAATACAAATAAATTGCTTCTAAAAA
130 TGTAAGAATAATTACACACAAAAAATGAATAAAATACAAATAAATTGCTTCTAAAAA
9642665 ACAATGAAAAA-ATTTAAATATTTTAAGATCATATCATTATAATTATAAACCACAAATATGGACT
1 ACAATGAAAAATATTTAAATATTTTAAGATCATATCATTATAATTATAAACCACAAATATGGACT
9642729 TGCTTTTTTTTTCTAGCCTTAGAAAATATTATTAAAAAAACATTACAGGCATTGATACAATACTT
66 TGCTTTTTTTTTCTAGCCTTAGAAAATATTATTAAAAAAACATTACAGGCATTGATACAATACTT
9642794 GTAAGAATAATTACACACAAAAAATGAATAAAATACAAATAAATTGCTTCTAAAAA
131 GTAAGAATAATTACACACAAAAAATGAATAAAATACAAATAAATTGCTTCTAAAAA
9642850 A
1 A
9642851 TAAAATGTCT
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 175 0.94
187 11 0.06
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.33
Consensus pattern (186 bp):
ACAATGAAAAATATTTAAATATTTTAAGATCATATCATTATAATTATAAACCACAAATATGGACT
TGCTTTTTTTTTCTAGCCTTAGAAAATATTATTAAAAAAACATTACAGGCATTGATACAATACTT
GTAAGAATAATTACACACAAAAAATGAATAAAATACAAATAAATTGCTTCTAAAAA
Found at i:9643222 original size:17 final size:15
Alignment explanation
Indices: 9643202--9643235 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
9643192 GTACTATTAG
9643202 TATATTTGTTTAGTTTT
1 TATATTT-TTTA-TTTT
9643219 TATATTTTTTATTTT
1 TATATTTTTTATTTT
9643234 TA
1 TA
9643236 AAAATTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TATATTTTTTATTTT
Found at i:9644377 original size:45 final size:44
Alignment explanation
Indices: 9644298--9644389 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 44
9644288 CCTCCACTTT
*
9644298 TTTCTCTTTACATTTTTATCTTTTTCCTTCTTATTATATGATTA
1 TTTCTCTTTACATTTTTATCCTTTTCCTTCTTATTATATGATTA
* * * *
9644342 TTTCTCTTTACCTTTTTTGTCCTTTTCCTTTTTATTATATTATTA
1 TTTCTCTTTA-CATTTTTATCCTTTTCCTTCTTATTATATGATTA
9644387 TTT
1 TTT
9644390 GCTTGTTGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 10 0.24
45 32 0.76
ACGTcount: A:0.15, C:0.16, G:0.02, T:0.66
Consensus pattern (44 bp):
TTTCTCTTTACATTTTTATCCTTTTCCTTCTTATTATATGATTA
Found at i:9664800 original size:25 final size:26
Alignment explanation
Indices: 9664772--9664822 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9664762 TTCATTTTCA
9664772 TTTA-ATAAAATATT-ATTTTTATATT
1 TTTATATAAAAT-TTAATTTTTATATT
*
9664797 TTTATATAAAATTTAATTTTTTTATT
1 TTTATATAAAATTTAATTTTTATATT
9664823 GAAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATATAAAATTTAATTTTTATATT
Found at i:9664811 original size:19 final size:19
Alignment explanation
Indices: 9664789--9664857 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
9664779 AAATATTATT
9664789 TTTATATTTTTATATAAAA
1 TTTATATTTTTATATAAAA
* *
9664808 TTTA-ATTTTTTTATTGAAA
1 TTTATATTTTTATA-TAAAA
* * *
9664827 -TAATATCTTAAT-TAAAA
1 TTTATATTTTTATATAAAA
9664844 TTTATTATTTTTAT
1 TTTA-TATTTTTAT
9664858 TTCACTTAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
17 4 0.11
18 12 0.33
19 20 0.56
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTATATTTTTATATAAAA
Found at i:9667307 original size:19 final size:19
Alignment explanation
Indices: 9667285--9667322 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9667275 ATAATTATAC
9667285 ATAAAAATTTAAATTTAAA
1 ATAAAAATTTAAATTTAAA
*
9667304 ATAAAATTTTAAATTTAAA
1 ATAAAAATTTAAATTTAAA
9667323 TTTTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAAAATTTAAATTTAAA
Found at i:9667326 original size:13 final size:13
Alignment explanation
Indices: 9667289--9667326 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9667279 TTATACATAA
9667289 AAATTTAAA-TTT
1 AAATTTAAATTTT
* *
9667301 AAAATAAAATTTT
1 AAATTTAAATTTT
9667314 AAATTTAAATTTT
1 AAATTTAAATTTT
9667327 TTTCATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:9670620 original size:2 final size:2
Alignment explanation
Indices: 9670613--9670644 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9670603 ATCAAATGGG
9670613 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9670645 AGAATCTACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9675936 original size:6 final size:6
Alignment explanation
Indices: 9675925--9675955 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9675915 ATTAAATTTG
9675925 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
9675956 AATCCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:9680018 original size:9 final size:9
Alignment explanation
Indices: 9680004--9680040 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9679994 TATAGTTTGA
9680004 TATTCGAAT
1 TATTCGAAT
9680013 TATTCGAAT
1 TATTCGAAT
*
9680022 TATTCGAGT
1 TATTCGAAT
9680031 TATTCGAAT
1 TATTCGAAT
9680040 T
1 T
9680041 TGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9680112 original size:9 final size:9
Alignment explanation
Indices: 9680095--9680125 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9680085 TCGAGTTGAT
9680095 TCGAATAAC
1 TCGAATAAC
*
9680104 TCGATTAAC
1 TCGAATAAC
9680113 TCGAATAAC
1 TCGAATAAC
9680122 TCGA
1 TCGA
9680126 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9680431 original size:35 final size:35
Alignment explanation
Indices: 9680385--9680456 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
9680375 TCCTACAGAG
9680385 TTAATTTTAAAACATGGACTATCAAGCCATAAGAT
1 TTAATTTTAAAACATGGACTATCAAGCCATAAGAT
9680420 TTAATTTTAAAACATGGACTATCAAGCCATAAGAT
1 TTAATTTTAAAACATGGACTATCAAGCCATAAGAT
9680455 TT
1 TT
9680457 TTATCAGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (35 bp):
TTAATTTTAAAACATGGACTATCAAGCCATAAGAT
Found at i:9687676 original size:19 final size:19
Alignment explanation
Indices: 9687652--9687689 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9687642 TTGGTTGTTT
9687652 TCCCTTTTGATTCGCAGCC
1 TCCCTTTTGATTCGCAGCC
*
9687671 TCCCTTTTGATTCGTAGCC
1 TCCCTTTTGATTCGCAGCC
9687690 CTTTTGATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.16, T:0.39
Consensus pattern (19 bp):
TCCCTTTTGATTCGCAGCC
Found at i:9687693 original size:16 final size:17
Alignment explanation
Indices: 9687653--9687697 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
9687643 TGGTTGTTTT
9687653 CCCTTTTGATTCGCAGCC
1 CCCTTTTGATTCGCAG-C
*
9687671 TCCCTTTTGATTCGTAG-
1 -CCCTTTTGATTCGCAGC
9687688 CCCTTTTGAT
1 CCCTTTTGAT
9687698 CTTGTTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
19 15 0.60
ACGTcount: A:0.11, C:0.31, G:0.16, T:0.42
Consensus pattern (17 bp):
CCCTTTTGATTCGCAGC
Found at i:9694674 original size:39 final size:39
Alignment explanation
Indices: 9694621--9694728 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 39
9694611 CCGGCACTTA
* *
9694621 TGTGCCGACTACTGTTACTGTTACCGATTTAGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGATTTAGCACTTTG
* *
9694660 TGTGTTGAATACTGTTACCGTTACTGTTACCGATTTGGCACTTTG
1 TGTGTCGAATAC---T---GTTACTGTTACCGATTTAGCACTTTG
*
9694705 TGTGTCGAATACTGTTACTATTAC
1 TGTGTCGAATACTGTTACTGTTAC
9694729 TGTTACCGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
39 19 0.33
42 2 0.04
45 36 0.63
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACCGATTTAGCACTTTG
Found at i:9694701 original size:45 final size:45
Alignment explanation
Indices: 9694634--9694820 Score: 232
Period size: 45 Copynumber: 4.2 Consensus size: 45
9694624 GCCGACTACT
* *
9694634 GTTACTGTTACCGATTTAGCACTTTGTGTGTTGAATACTGTTACC
1 GTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACC
** *
9694679 GTTACTGTTACCGATTTGGCACTTTGTGTGTCGAATACTGTTACT
1 GTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* * *
9694724 ATTACTGTTACCGATTC-GATACTTTGTGTGTCAAATACTGTTACC
1 GTTACTGTTACCGATTCAG-CACTTTGTGTGTCGAATACTGTTACC
* * * * **
9694769 GTTACTGTTACAGATTCAGTACTTTGTGTATTGAATACTGTTATT
1 GTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACC
9694814 GTTACTG
1 GTTACTG
9694821 CTACTGCTAC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 123 0.98
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:9694777 original size:90 final size:90
Alignment explanation
Indices: 9694630--9694820 Score: 258
Period size: 90 Copynumber: 2.1 Consensus size: 90
9694620 ATGTGCCGAC
* ** *
9694630 TACTGTTACTGTTACCGATTTAGCACTTTGTGTGTTGAATACTGTTACCGTTACTGTTACCGATT
1 TACTGTTACTGTTACCGATTGAGCACTTTGTGTGTCAAATACTGTTACCGTTACTGTTACAGATT
** *
9694695 TGGCACTTTGTGTGTCGAATACTGT
66 CAGCACTTTGTGTATCGAATACTGT
* *
9694720 TACTATTACTGTTACCGATTCGA-TACTTTGTGTGTCAAATACTGTTACCGTTACTGTTACAGAT
1 TACTGTTACTGTTACCGATT-GAGCACTTTGTGTGTCAAATACTGTTACCGTTACTGTTACAGAT
* *
9694784 TCAGTACTTTGTGTATTGAATACTGT
65 TCAGCACTTTGTGTATCGAATACTGT
*
9694810 TATTGTTACTG
1 TACTGTTACTG
9694821 CTACTGCTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 86 0.99
91 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (90 bp):
TACTGTTACTGTTACCGATTGAGCACTTTGTGTGTCAAATACTGTTACCGTTACTGTTACAGATT
CAGCACTTTGTGTATCGAATACTGT
Found at i:9697016 original size:26 final size:26
Alignment explanation
Indices: 9696987--9697066 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
9696977 AAATAGTAAA
9696987 TTTAACTTCAATTGTTGAATAATACT
1 TTTAACTTCAATTGTTGAATAATACT
** **
9697013 TTTATAAAT-ACATAT-TT-AATAATAAA
1 TTTA-ACTTCA-AT-TGTTGAATAATACT
9697039 TTTAACTTCAATTGTTGAATAATACT
1 TTTAACTTCAATTGTTGAATAATACT
9697065 TT
1 TT
9697067 CATAAATACA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
24 1 0.03
25 6 0.15
26 26 0.65
27 6 0.15
28 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (26 bp):
TTTAACTTCAATTGTTGAATAATACT
Found at i:9697022 original size:52 final size:52
Alignment explanation
Indices: 9696966--9697074 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 52
9696956 TCTTTTAAAA
* *
9696966 AAATAAAAACAAAATAGTAAATTTAACTTCAATTGTTGAATAATACTTTTAT
1 AAATAAAAACAAAATAATAAATTTAACTTCAATTGTTGAATAATACTTTCAT
* * ***
9697018 AAATACATATTTAATAATAAATTTAACTTCAATTGTTGAATAATACTTTCAT
1 AAATAAAAACAAAATAATAAATTTAACTTCAATTGTTGAATAATACTTTCAT
9697070 AAATA
1 AAATA
9697075 CATATTTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.39
Consensus pattern (52 bp):
AAATAAAAACAAAATAATAAATTTAACTTCAATTGTTGAATAATACTTTCAT
Found at i:9697075 original size:52 final size:52
Alignment explanation
Indices: 9696978--9697085 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
9696968 ATAAAAACAA
* *
9696978 AATAGTAAATTTAACTTCAATTGTTGAATAATACTTTTATAAATACATATTT
1 AATAATAAATTTAACTTCAATTGTTGAATAATACTTTCATAAATACATATTT
9697030 AATAATAAATTTAACTTCAATTGTTGAATAATACTTTCATAAATACATATTT
1 AATAATAAATTTAACTTCAATTGTTGAATAATACTTTCATAAATACATATTT
9697082 AATA
1 AATA
9697086 TTTTTCTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (52 bp):
AATAATAAATTTAACTTCAATTGTTGAATAATACTTTCATAAATACATATTT
Found at i:9697085 original size:26 final size:25
Alignment explanation
Indices: 9697004--9697085 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
9696994 TCAATTGTTG
9697004 AATAATACTTTTATAAATACATATTT
1 AATAATAC-TTTATAAATACATATTT
** * *
9697030 AATAATAAATT-TAACTTCA-ATTGTT
1 AATAATACTTTATAAATACATA-T-TT
9697055 GAATAATACTTTCATAAATACATATTT
1 -AATAATACTTT-ATAAATACATATTT
9697082 AATA
1 AATA
9697086 TTTTTCTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 1 0.02
24 7 0.17
25 4 0.10
26 20 0.48
27 2 0.05
28 7 0.17
29 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (25 bp):
AATAATACTTTATAAATACATATTT
Found at i:9712844 original size:15 final size:15
Alignment explanation
Indices: 9712826--9712864 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9712816 CTCAAATTTG
9712826 ATAGTTTTAAATTAT
1 ATAGTTTTAAATTAT
* *
9712841 ATAGTTTAAAATTTT
1 ATAGTTTTAAATTAT
*
9712856 AAAGTTTTA
1 ATAGTTTTA
9712865 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (15 bp):
ATAGTTTTAAATTAT
Found at i:9727319 original size:10 final size:10
Alignment explanation
Indices: 9727304--9727338 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
9727294 ATGTCCATAT
9727304 ATATATACAC
1 ATATATACAC
9727314 ATATATACAC
1 ATATATACAC
9727324 ATATATA-AC
1 ATATATACAC
9727333 ATATAT
1 ATATAT
9727339 GTAAACATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (10 bp):
ATATATACAC
Found at i:9734667 original size:58 final size:58
Alignment explanation
Indices: 9734533--9734758 Score: 379
Period size: 58 Copynumber: 4.0 Consensus size: 58
9734523 CACTGGCTGG
* *
9734533 TAACATTCCAACTTGAGTTAC-ATCTTATTACCCATAAATAAAGTTCT-A-AG-AGGA
1 TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAGGA
*
9734587 TAACTTTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAGGA
1 TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAGGA
*
9734645 TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTGTAAGAGAAGGA
1 TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAGGA
*
9734703 TAACATTCTAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAG
1 TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAG
9734759 TTATGCATAA
Statistics
Matches: 161, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
54 20 0.12
55 24 0.15
56 1 0.01
57 2 0.01
58 114 0.71
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (58 bp):
TAACATTCCAACTTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAGAAGGA
Found at i:9738792 original size:15 final size:14
Alignment explanation
Indices: 9738774--9738804 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9738764 TTTATCCCTC
9738774 TTTCTTTTCTTTTTT
1 TTTCTTTT-TTTTTT
9738789 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
9738803 TT
1 TT
9738805 GGGGGGGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:9738858 original size:1 final size:1
Alignment explanation
Indices: 9738854--9738884 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
9738844 TTTTTCCCCC
9738854 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9738885 GGGGGGGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9739247 original size:16 final size:16
Alignment explanation
Indices: 9739226--9739266 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
9739216 ATTTTTTGAA
*
9739226 AAATATTTAATATATC
1 AAATATTAAATATATC
9739242 AAATATTAAATATATC
1 AAATATTAAATATATC
9739258 AAATGATTA
1 AAAT-ATTA
9739267 GATTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (16 bp):
AAATATTAAATATATC
Found at i:9739646 original size:22 final size:23
Alignment explanation
Indices: 9739621--9739673 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9739611 GTTAAAGTTT
*
9739621 AAATTTTAAATTTGATT-AATAA
1 AAATTTTAAAGTTGATTAAATAA
* *
9739643 AAATATTAAAGTTGGTTAAATAA
1 AAATTTTAAAGTTGATTAAATAA
*
9739666 TAATTTTA
1 AAATTTTA
9739674 TCTATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
AAATTTTAAAGTTGATTAAATAA
Found at i:9749223 original size:3 final size:3
Alignment explanation
Indices: 9749215--9749239 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9749205 CTAGTTAACT
9749215 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9749240 CAACTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9750836 original size:2 final size:2
Alignment explanation
Indices: 9750784--9750825 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9750774 CTCTCTCAAC
9750784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9750826 CTTGCATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9754657 original size:3 final size:3
Alignment explanation
Indices: 9754649--9754711 Score: 76
Period size: 3 Copynumber: 20.7 Consensus size: 3
9754639 ATAAGTAAGT
*
9754649 ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
9754693 ATA ATA CAGTA ATA ATA AT
1 ATA ATA -A-TA ATA ATA AT
9754712 TTAAATAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 3 0.06
3 43 0.81
4 5 0.09
5 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9754691 original size:14 final size:13
Alignment explanation
Indices: 9754649--9754711 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 13
9754639 ATAAGTAAGT
9754649 ATAATAAT-AATA
1 ATAATAATAAATA
9754661 ATAATATATAATATA
1 ATAATA-ATAA-ATA
9754676 ATAATAATAAACTA
1 ATAATAATAAA-TA
*
9754690 ATAATAATACAGTA
1 ATAATAATA-AATA
9754704 ATAATAAT
1 ATAATAAT
9754712 TTAAATAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 6 0.13
13 3 0.07
14 26 0.58
15 10 0.22
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:9755702 original size:18 final size:17
Alignment explanation
Indices: 9755676--9755717 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
9755666 TTTAATTATT
9755676 TTTTAATTTAAAAATAA
1 TTTTAATTTAAAAATAA
**
9755693 TTTTATATTTTTAAATAA
1 TTTTA-ATTTAAAAATAA
9755711 TTTTAAT
1 TTTTAAT
9755718 GATTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTAATTTAAAAATAA
Found at i:9755735 original size:46 final size:49
Alignment explanation
Indices: 9755666--9755757 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 49
9755656 TATGTTAGTA
* *
9755666 TTTAATTATTTTTTAATTTAAAAAT-A-ATTTTAT-ATTTTTAAATAAT
1 TTTAATGATTTTTAAATTTAAAAATGAGATTTTATAATTTTTAAATAAT
*
9755712 TTTAATGA-TTTTAAATTTAAAAAATGAGTTTTTATAATTTTTAAAT
1 TTTAATGATTTTTAAATTT-AAAAATGAGATTTTATAATTTTTAAAT
9755758 TTTAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
45 9 0.23
46 13 0.33
47 1 0.03
48 6 0.15
49 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (49 bp):
TTTAATGATTTTTAAATTTAAAAATGAGATTTTATAATTTTTAAATAAT
Found at i:9756668 original size:31 final size:31
Alignment explanation
Indices: 9756596--9756669 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
9756586 TTGATATATG
* *
9756596 AATTTTAATTTT-GTGTAATTATATATATAA
1 AATTTTAATTTTAGTGTAAATATATACATAA
* * * *
9756626 TACTTTGATTTTAGTTTAAATATATACATAA
1 AATTTTAATTTTAGTGTAAATATATACATAA
9756657 AATTTTAATTTTA
1 AATTTTAATTTTA
9756670 TTTCAATTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (31 bp):
AATTTTAATTTTAGTGTAAATATATACATAA
Done.