Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 17 of 259
Found at i:4979696 original size:30 final size:30
Alignment explanation
Indices: 4979660--4979731 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
4979650 AATCGGAAGT
4979660 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
*
4979690 TTTGGCAGTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
4979720 TTTGGCTACTAA
1 TTTGGC-ACTAA
4979732 AGGCACTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 35 0.90
31 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:4987046 original size:30 final size:30
Alignment explanation
Indices: 4987010--4987081 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
4987000 AATCGAAAGT
4987010 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
*
4987040 TTTGGCAGTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
4987070 TTTGGCTACTAA
1 TTTGGC-ACTAA
4987082 AGGCACTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 35 0.90
31 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:4994511 original size:477 final size:477
Alignment explanation
Indices: 4993615--4994948 Score: 2470
Period size: 477 Copynumber: 2.8 Consensus size: 477
4993605 ACGTTATGTG
* *
4993615 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATCATTAATATAAAAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
*
4993680 AATAGTAATTTGAATATAATAATATCAAAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTA
66 AATAGTAATTTGAATATAATAATATC--AAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTG
*
4993745 GAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTT
129 GAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTT
*
4993810 TTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGAT
194 TTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGAT
4993875 ATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAA
259 ATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAA
*
4993940 TGGACAAGCAATCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATC
324 TGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATC
4994005 AAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATA
389 AAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATA
*
4994070 ATTAATGCTGTTTTGATAAAAATT
454 ATTAATACTGTTTTGATAAAAATT
* *
4994094 AGTTATAAATTTTAAAGACATTTAAAAATATTAAAAATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
* *
4994159 AATGGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
*
4994224 AATAAATTAAGGTTATATAAATATTCAATAGCGACAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
4994289 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
4994354 AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
4994419 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
*
4994484 ATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATAGTTATTCATACTTCAAATAATAAT
391 ATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAAT
*
4994549 TAATATTGTTTTGATAAAAATT
456 TAATACTGTTTTGATAAAAATT
*
4994571 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
*
4994636 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
4994701 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
* * *
4994766 TAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
*
4994831 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
4994896 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
4994949 CAAATAATTA
Statistics
Matches: 830, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
477 744 0.90
479 86 0.10
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (477 bp):
AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
ATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAAT
TAATACTGTTTTGATAAAAATT
Found at i:4999342 original size:15 final size:15
Alignment explanation
Indices: 4999322--4999353 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4999312 AAATAATAAT
*
4999322 TTATATATATTTATC
1 TTATATACATTTATC
4999337 TTATATACATTTATC
1 TTATATACATTTATC
4999352 TT
1 TT
4999354 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:5000639 original size:41 final size:41
Alignment explanation
Indices: 5000379--5000638 Score: 355
Period size: 41 Copynumber: 6.4 Consensus size: 41
5000369 GTTAAATGAC
5000379 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
5000420 TTTTAACGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
5000461 TTTTATCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
5000502 TTTTAGCAGCGTTTTACCAAAATCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
5000543 TCTTAGAGGCGTTTTACCAAAAGTGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* **
5000583 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGT
5000624 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
5000639 TCTTAAAACG
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.02
40 10 0.05
41 171 0.88
42 10 0.05
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:5000669 original size:41 final size:40
Alignment explanation
Indices: 5000379--5000669 Score: 172
Period size: 41 Copynumber: 7.1 Consensus size: 40
5000369 GTTAAATGAC
* *
5000379 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTA-TAAAA-CGCCGCTATTGCTCT-GT
* * * *
5000420 TTTTAACGGCG--TTTTACCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTA-TAAAA-CGCCGCTATTGCTCT-GT
* * * *
5000461 TTTTATCGGCG--TTTTACCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTA-TAAAA-CGCCGCTATTGCTCT-GT
* * *
5000502 TTTTAGCAGCG--TTTTACCAAAATCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTA-TAAAA-CGCCGCTATTGCTCT-GT
* * * * *
5000543 TCTTAGAGGCG--TTTTACCAAAAGTGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTTTA-TAAAA-CGCCGCTATTGCTCTGT
*
5000583 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTTTA-TAAAACGCCGCTATTGCTCTGT
*
5000624 TTTTAGCGGCGTTTTTCT-TAAAACGCCGCTATTTCTCTGT
1 TTTTAGCGGCGTTTTT-TATAAAACGCCGCTATTGCTCTGT
5000664 ATTTTA
1 -TTTTA
5000670 AAATTTTTAC
Statistics
Matches: 222, Mismatches: 24, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
40 30 0.14
41 181 0.82
42 11 0.05
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTATAAAACGCCGCTATTGCTCTGT
Found at i:5004084 original size:144 final size:144
Alignment explanation
Indices: 5003797--5004476 Score: 711
Period size: 144 Copynumber: 4.7 Consensus size: 144
5003787 ATCCAACTTG
* * **
5003797 ACTTCATTGTACCTCTCTCCCAAAACAAATTGAGTGATTTGATCCCTTCTTGTATTGGT-AGTTT
1 ACTTCATTGTA-C-CTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAG-TT
* * * * *
5003861 ATCAAAAATGCAGTA-TTTAAGACTTGGTTCTAATCTATTAGAAGGTCCTATTCCCCAAGAAATT
63 ATCCAAATTGCA-TACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATT
* *
5003925 TGTGATTTGGGAAATTTA
127 TGTGATTTAGCAAATTTA
* * * * *
5003943 ACTTCATTAG-GCCTCTACCAAAACAAATTGAATGGTTCAGTCCCTTCTTGTCTTGGTAAGTTGT
1 ACTTCATT-GTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAGTTAT
***
5004007 CCAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCTTGAAGAAATTTGT
65 CCAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTTGT
*
5004072 GACTTAGCAAATTTA
130 GATTTAGCAAATTTA
* * * * * *
5004087 ACTTCATT-AAGCCTCTACCAAAACAAATTGAATGGTTCAATTCCTTTTTGTCTTGGTACA-TTG
1 ACTTCATTGTA-CCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTA-AGTTA
* *
5004150 TCCAAATTGGATACCTTACA-ACTTCATTCAAATCTATTAGAAGGTCCTATTCCCCAA-AAATTT
64 TCCAAATTGCATACCTTA-AGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAA-TT
* *
5004213 TGTAATTTCGCAAATTTA
127 TGTGATTTAGCAAATTTA
* *
5004231 ACTTCATTGTACCTCTTCCAAAACAAATTGAGTGGTTCAATCCTTTCTTGTATTGGT-AGTTTAT
1 ACTTCATTGTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAG-TTAT
* * * * *
5004295 -CAAAGATGCAGTA-CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATTCCCCAAGAAATTT
65 CCAAA-TTGCA-TACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTT
* * *
5004358 GTAATTCAGAAAATTTA
128 GTGATTTAGCAAATTTA
* * * * *
5004375 ACTTTATTGTACCTCT-CCGAAAACAAATTGAGTTGTTCAATCCCATCATGTATT-GTCAATTTA
1 ACTTCATTGTACCTCTACC-AAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGT-AAGTTA
* *
5004438 TCCAATTTGTATACCTT-AGAACTTGATTCAAATCTATTA
64 TCCAAATTGCATACCTTAAG-ACTTGATTCAAATCTATTA
5004477 AAAGTTCCGA
Statistics
Matches: 451, Mismatches: 62, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
142 1 0.00
143 18 0.04
144 408 0.90
145 15 0.03
146 8 0.02
147 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (144 bp):
ACTTCATTGTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAGTTATC
CAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTTGTG
ATTTAGCAAATTTA
Found at i:5007877 original size:12 final size:13
Alignment explanation
Indices: 5007850--5007882 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
5007840 CAAAATATTG
5007850 AATTTGTTTGTAAA
1 AATTTG-TTGTAAA
5007864 AATTTGTT-TAAA
1 AATTTGTTGTAAA
5007876 AATTTGT
1 AATTTGT
5007883 ACAATTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (13 bp):
AATTTGTTGTAAA
Found at i:5009541 original size:8 final size:8
Alignment explanation
Indices: 5009525--5009558 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
5009515 GGGCCCGTGA
*
5009525 AATAGAAT
1 AATAAAAT
5009533 AATAAAAT
1 AATAAAAT
5009541 AATAAAAT
1 AATAAAAT
5009549 AATAAAAT
1 AATAAAAT
5009557 AA
1 AA
5009559 ATTTAATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:5010923 original size:29 final size:29
Alignment explanation
Indices: 5010861--5010918 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
5010851 TATCATATAT
* *
5010861 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
5010890 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
5010919 TTTATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:5011449 original size:9 final size:9
Alignment explanation
Indices: 5011435--5011459 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5011425 AATGTATGTA
5011435 TATTTACGT
1 TATTTACGT
5011444 TATTTACGT
1 TATTTACGT
5011453 TATTTAC
1 TATTTAC
5011460 AATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (9 bp):
TATTTACGT
Found at i:5012764 original size:12 final size:12
Alignment explanation
Indices: 5012747--5012772 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5012737 ATATCTTGAT
5012747 AAAGTGGAGGAC
1 AAAGTGGAGGAC
5012759 AAAGTGGAGGAC
1 AAAGTGGAGGAC
5012771 AA
1 AA
5012773 TGCTTCTGTC
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:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (12 bp):
AAAGTGGAGGAC
Found at i:5015351 original size:37 final size:37
Alignment explanation
Indices: 5015307--5015437 Score: 253
Period size: 37 Copynumber: 3.5 Consensus size: 37
5015297 CACTTGTCCC
5015307 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
5015344 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
5015381 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
5015418 TGATCAGATAAGTGTAGCCA
1 TGATCAGATAAGTGTAGCCA
5015438 AAGCTATCAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:5015395 original size:74 final size:72
Alignment explanation
Indices: 5015290--5015437 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 72
5015280 TACGTATGAT
5015290 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
5015355 GTGTAGC
66 GTGTAGC
* *
5015362 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
5015427 AAGTGTAGC
64 AAGTGTAGC
5015436 CA
1 CA
5015438 AAGCTATCAC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 10 0.14
73 3 0.04
74 59 0.82
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (72 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
GTGTAGC
Found at i:5015470 original size:46 final size:46
Alignment explanation
Indices: 5015403--5015569 Score: 217
Period size: 46 Copynumber: 3.5 Consensus size: 46
5015393 TGTAGCCACC
**
5015403 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCAAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
* * *
5015449 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
* *
5015495 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
5015547 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
5015570 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 63 0.60
49 2 0.02
52 40 0.38
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
Found at i:5015521 original size:52 final size:52
Alignment explanation
Indices: 5015442--5015563 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 52
5015432 TAGCCAAAGC
* * **
5015442 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
5015495 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
5015547 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
5015564 ATCAGAAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
52 43 0.69
53 19 0.31
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:5018753 original size:49 final size:49
Alignment explanation
Indices: 5018698--5018892 Score: 300
Period size: 49 Copynumber: 4.0 Consensus size: 49
5018688 TTCGTTTTCT
* *
5018698 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
* * *
5018747 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
* * *
5018796 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
*
5018845 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACA-AATCACAT
5018893 GTTCACATGT
Statistics
Matches: 137, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 131 0.96
50 6 0.04
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:5020204 original size:37 final size:37
Alignment explanation
Indices: 5020160--5020290 Score: 253
Period size: 37 Copynumber: 3.5 Consensus size: 37
5020150 CACTTGTCCC
5020160 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
5020197 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
5020234 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
5020271 TGATCAGATAAGTGTAGCCA
1 TGATCAGATAAGTGTAGCCA
5020291 AAGCTATCAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:5020248 original size:74 final size:72
Alignment explanation
Indices: 5020143--5020290 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 72
5020133 TACGTATGAT
5020143 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
5020208 GTGTAGC
66 GTGTAGC
* *
5020215 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
5020280 AAGTGTAGC
64 AAGTGTAGC
5020289 CA
1 CA
5020291 AAGCTATCAC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 10 0.14
73 3 0.04
74 59 0.82
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (72 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
GTGTAGC
Found at i:5020323 original size:46 final size:46
Alignment explanation
Indices: 5020256--5020422 Score: 217
Period size: 46 Copynumber: 3.5 Consensus size: 46
5020246 TGTAGCCACC
**
5020256 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCAAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
* * *
5020302 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
* *
5020348 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
5020400 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
5020423 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 63 0.60
48 1 0.01
50 1 0.01
52 40 0.38
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACT
Found at i:5020374 original size:52 final size:52
Alignment explanation
Indices: 5020295--5020408 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 52
5020285 TAGCCAAAGC
* **
5020295 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
5020348 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
5020400 TATCACTTT
1 TATCACTTT
5020409 GTCACTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 44 0.80
53 11 0.20
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:5030882 original size:44 final size:44
Alignment explanation
Indices: 5030752--5031392 Score: 707
Period size: 44 Copynumber: 14.6 Consensus size: 44
5030742 ATAAATTACC
* *
5030752 GATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * *
5030796 GACAACAGGTTTGGTGTCTCTGTATTG-CTAAAGAGTAAATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTC-AGAGAGCAGATCGAA
* * * *
5030840 GATAACAGGTTTGGCGTCTCTGTATTATCAGGGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
5030884 GATAGTAGATTTGACATCTCTGTATGGTCAGAAAGCAGATC-ACCA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGA--A
* *
5030929 -ATAGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGAT-GAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCG-AA
* *
5030972 GATAGTAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
5031016 GATAGCAGATTTGGCATTTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
5031060 GATAGTAGATTTGGCATCTCTATATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
5031104 GATAGTAGATTTGGCGCCTCTGT-TTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
5031147 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
5031191 GATAGCAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
** *
5031235 GATAATAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * * *
5031279 GAAAGCACATATAGCATTTCTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * * *
5031323 GAAAGCACATATAGCATTTCTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
5031367 GATAGCTGATTTGGTGTCTCTGTATT
1 GATAGCAGATTTGGCGTCTCTGTATT
5031393 AGGCGGGGTG
Statistics
Matches: 512, Mismatches: 76, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
43 43 0.08
44 465 0.91
45 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:5033180 original size:18 final size:18
Alignment explanation
Indices: 5033157--5033192 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
5033147 ATCATTTATT
5033157 ATTTTTATATTGT-TTTAA
1 ATTTTTAT-TTGTATTTAA
5033175 ATTTTTATTTGTATTTAA
1 ATTTTTATTTGTATTTAA
5033193 TCTTATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTGTATTTAA
Found at i:5034911 original size:19 final size:22
Alignment explanation
Indices: 5034872--5034911 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
5034862 AGAAACCCAA
5034872 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
5034894 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
5034912 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:5035010 original size:27 final size:28
Alignment explanation
Indices: 5034973--5035135 Score: 180
Period size: 27 Copynumber: 6.0 Consensus size: 28
5034963 AGCATGGCTG
* *
5034973 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
5034999 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
5035027 CCA-AAACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
5035054 CCAGAT-CAGATATTTGTGGCATAGCTA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
5035081 CCAGA-ACAGATATATGTGGCACAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
5035108 CCAGAT-CAGATA-ATTGTGGCATAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
5035135 C
1 C
5035136 TAGGACGCTT
Statistics
Matches: 119, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.05
27 97 0.82
28 16 0.13
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:5035036 original size:54 final size:54
Alignment explanation
Indices: 5034977--5035135 Score: 230
Period size: 54 Copynumber: 2.9 Consensus size: 54
5034967 TGGCTGCCAG
* * * *
5034977 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
1 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAA
* * *
5035031 AACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCTACCAG
1 AACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAA
*
5035085 AACAGATATATGTGGCACAGCCACCAGATCAGATAATTGTGGCATAGCCAC
1 AACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCAC
5035136 TAGGACGCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 76 0.81
55 18 0.19
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
AACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAA
Found at i:5035280 original size:26 final size:28
Alignment explanation
Indices: 5035251--5035321 Score: 92
Period size: 26 Copynumber: 2.6 Consensus size: 28
5035241 TTAACCCTAC
*
5035251 GGGTATAACAGTAATTTT-GAAAC-TAG
1 GGGTATAACAGTAATTTTCCAAACATAG
*
5035277 GGGTATAACAGTAATTTTCCATACATAG
1 GGGTATAACAGTAATTTTCCAAACATAG
* *
5035305 GGGTATTATAGTAATTT
1 GGGTATAACAGTAATTT
5035322 AGCTACTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 18 0.46
27 3 0.08
28 18 0.46
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (28 bp):
GGGTATAACAGTAATTTTCCAAACATAG
Found at i:5036797 original size:26 final size:26
Alignment explanation
Indices: 5036761--5036870 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
5036751 CATGAAATTC
5036761 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5036787 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
5036813 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
5036839 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
5036865 TTATCA
1 TTATCA
5036871 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
26 80 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5039876 original size:15 final size:16
Alignment explanation
Indices: 5039847--5039878 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5039837 CATTCTTTAT
5039847 AAAATTTTTGCTTTTG
1 AAAATTTTTGCTTTTG
*
5039863 AAAATTTTTGTTTTTG
1 AAAATTTTTGCTTTTG
5039879 TAAACCCATT
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:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATTTTTGCTTTTG
Found at i:5040781 original size:19 final size:22
Alignment explanation
Indices: 5040742--5040781 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
5040732 AGAAACCCAA
5040742 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
5040764 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
5040782 GTGTGAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:5040905 original size:27 final size:26
Alignment explanation
Indices: 5040845--5041008 Score: 202
Period size: 27 Copynumber: 6.1 Consensus size: 26
5040835 CATGGCTGCT
* *
5040845 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
*
5040871 GGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
5040899 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
5040926 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
5040953 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* *
5040980 AGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATAA-TGTGGCAGAGCCACC
5041007 AG
1 AG
5041009 GACGCTTCCT
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 103 0.84
28 16 0.13
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:5040934 original size:54 final size:54
Alignment explanation
Indices: 5040845--5041008 Score: 258
Period size: 54 Copynumber: 3.0 Consensus size: 54
5040835 CATGGCTGCT
* * * * *
5040845 AGAACAGATA-ATGTGACAGAGTCACCGGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
*
5040899 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACC
5040953 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACC
5041007 AG
1 AG
5041009 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 85 0.83
55 17 0.17
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACC
Found at i:5042666 original size:26 final size:26
Alignment explanation
Indices: 5042630--5042739 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
5042620 CATGAAATTC
5042630 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5042656 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
5042682 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
5042708 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
5042734 TTATCA
1 TTATCA
5042740 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
26 80 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5045228 original size:28 final size:29
Alignment explanation
Indices: 5045193--5045263 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
5045183 AAATAAAGGT
* *
5045193 TATAAAAACTA-TTAAATTTTATTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
5045221 TATAAAAAATATTTAAATTTTAGTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
*
5045250 T-TAGAAAATATTTA
1 TATAAAAAATATTTA
5045264 TAAAAATCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (29 bp):
TATAAAAAATATTTAAATTTTAGTAAAAA
Found at i:5052097 original size:3 final size:3
Alignment explanation
Indices: 5052089--5052156 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
5052079 ACTTTAAGAG
5052089 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5052137 TAA TGAA TAA -AA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TA
5052157 CTTGACATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:5052431 original size:23 final size:23
Alignment explanation
Indices: 5052401--5052447 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5052391 CCTCCTCTTG
5052401 AAATCGTGACTATCTTATGAATA
1 AAATCGTGACTATCTTATGAATA
5052424 AAATCGTGACTATCTTATGAATA
1 AAATCGTGACTATCTTATGAATA
5052447 A
1 A
5052448 TTTCATCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (23 bp):
AAATCGTGACTATCTTATGAATA
Found at i:5054023 original size:32 final size:32
Alignment explanation
Indices: 5053987--5054053 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
5053977 TATTAGTAAA
*
5053987 TTTCTCTATTTGGTCACCCAACTAT-TTAATTT
1 TTTCT-TATTTGGCCACCCAACTATCTTAATTT
* * *
5054019 TTTCTTTTTTGGCCACCCATCTATCTTGATTT
1 TTTCTTATTTGGCCACCCAACTATCTTAATTT
5054051 TTT
1 TTT
5054054 TGGTATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.16, C:0.22, G:0.07, T:0.54
Consensus pattern (32 bp):
TTTCTTATTTGGCCACCCAACTATCTTAATTT
Found at i:5082465 original size:15 final size:15
Alignment explanation
Indices: 5082423--5082470 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
5082413 TTATAAATGT
5082423 TTATTTGTTTTATT-
1 TTATTTGTTTTATTG
* *
5082437 ATATTT-TTAT-TTG
1 TTATTTGTTTTATTG
5082450 TTATTTGTTTTATTG
1 TTATTTGTTTTATTG
5082465 TTATTT
1 TTATTT
5082471 TCTTTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
14 8 0.30
15 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (15 bp):
TTATTTGTTTTATTG
Found at i:5082471 original size:27 final size:28
Alignment explanation
Indices: 5082423--5082490 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
5082413 TTATAAATGT
*
5082423 TTATTTGTTTTATTATATTTTTATTT-G
1 TTATTTGTTTTATTATATTTTTATTTCA
* *
5082450 TTATTTGTTTTATTGT-TATTTTCTTTCA
1 TTATTTGTTTTATTATAT-TTTTATTTCA
5082478 TT-TTTGTTTTATT
1 TTATTTGTTTTATT
5082491 TTTGTTCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 33 0.92
28 2 0.06
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (28 bp):
TTATTTGTTTTATTATATTTTTATTTCA
Found at i:5082521 original size:18 final size:19
Alignment explanation
Indices: 5082498--5082537 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
5082488 ATTTTTGTTC
5082498 TCTTTTTACACTTT-TTTT
1 TCTTTTTACACTTTCTTTT
**
5082516 TCTTTTTATTCTTTCTTTT
1 TCTTTTTACACTTTCTTTT
5082535 TCT
1 TCT
5082538 CTCTGTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TCTTTTTACACTTTCTTTT
Found at i:5083964 original size:92 final size:92
Alignment explanation
Indices: 5083771--5083964 Score: 246
Period size: 92 Copynumber: 2.1 Consensus size: 92
5083761 ACGTCAGCAT
*
5083771 CACTGCGTATCATTGACTAAACTGGCAGTTTTACTGCAACCTAACGGTATAGCGATTTACCGCAT
1 CACTGCGTACCATTGACTAAACTGGCAGTTTTACTGCAACCTAACGGTATAGCGATTTACCGCAT
* *
5083836 TGCGCTATACCGCATGTACGTTAGCTA
66 TGCACTATACCGCATATACGTTAGCTA
** * * * * ** *
5083863 TGCTACGTACCATTGACTGAACTGGTAGTTTTACTGCAATCTATTGGTATAGCGAATTT-TCGCA
1 CACTGCGTACCATTGACTAAACTGGCAGTTTTACTGCAACCTAACGGTATAGCG-ATTTACCGCA
* *
5083927 TTGCATTGTACCGCATATACGTTAGCTA
65 TTGCACTATACCGCATATACGTTAGCTA
5083955 CACTGCGTAC
1 CACTGCGTAC
5083965 TACTATCTGA
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
92 80 0.95
93 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (92 bp):
CACTGCGTACCATTGACTAAACTGGCAGTTTTACTGCAACCTAACGGTATAGCGATTTACCGCAT
TGCACTATACCGCATATACGTTAGCTA
Found at i:5084377 original size:25 final size:25
Alignment explanation
Indices: 5084343--5084428 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
5084333 TATGCATCAT
5084343 ATTGACTGTTCGACTAAAATGTCTA
1 ATTGACTGTTCGACTAAAATGTCTA
* * * *
5084368 ATTGACTGTTTGATTGAAGTGTCTA
1 ATTGACTGTTCGACTAAAATGTCTA
* * *
5084393 ATTGACTGTTCAACTACAATGTCTG
1 ATTGACTGTTCGACTAAAATGTCTA
5084418 ATTGACTGTTC
1 ATTGACTGTTC
5084429 TACTGAAAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (25 bp):
ATTGACTGTTCGACTAAAATGTCTA
Found at i:5087278 original size:11 final size:11
Alignment explanation
Indices: 5087262--5087286 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5087252 ATTAGTTAAC
5087262 TATAAAATAAT
1 TATAAAATAAT
5087273 TATAAAATAAT
1 TATAAAATAAT
5087284 TAT
1 TAT
5087287 TTAATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATAAAATAAT
Found at i:5097706 original size:15 final size:15
Alignment explanation
Indices: 5097686--5097737 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
5097676 AACAGTTAAT
5097686 AATAAAATGATATAA
1 AATAAAATGATATAA
*
5097701 AATAAAATAATA-AA
1 AATAAAATGATATAA
5097715 TAATAAAAATGATATAA
1 -AAT-AAAATGATATAA
*
5097732 TATAAA
1 AATAAA
5097738 TAATGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAAATGATATAA
Found at i:5097719 original size:30 final size:30
Alignment explanation
Indices: 5097683--5097741 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
5097673 ATAAACAGTT
5097683 AATAAT-AAAATGATATAAAATAAAATAATA
1 AATAATAAAAATGATATAAAAT-AAATAATA
*
5097713 AATAATAAAAATGATATAATATAAATAAT
1 AATAATAAAAATGATATAAAATAAATAAT
5097742 GATTTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (30 bp):
AATAATAAAAATGATATAAAATAAATAATA
Found at i:5104900 original size:78 final size:79
Alignment explanation
Indices: 5104673--5104994 Score: 278
Period size: 78 Copynumber: 4.0 Consensus size: 79
5104663 TATTTTCTTT
* * *
5104673 CTCATTTTTGGCAATAAAATCAAAA--TGCAAT-AAATCCATTGAACGGCGGGAATCAATCCCGA
1 CTCATTTTTGGAAATAAAA-CAAAATTTGGAATAAAAT-CATTAAACGGCGGGAATCAATCCCGA
* *
5104735 CACGGATTCTATTTTA
64 AACGGATTTTATTTTA
* * * ** *
5104751 CTCATTTTTGGAAATAAAACAAAATTTTGAATAAAATCATTGAATGGCAAGAATCAATCTCGAAA
1 CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
5104816 CGGATTTTATTTTA
66 CGGATTTTATTTTA
* **
5104830 CTCATTTTTGGAAAT-AAATAAAATTTGGAATAAAATTGTTAAACGGCGGGAATCAATCCCGAAA
1 CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
**
5104894 AAGATTTTA-TTTA
66 CGGATTTTATTTTA
* * *
5104907 CCTTTAATTTCCCATTTGGAAATAAAATC-AAATTAATGGAATAAAATCCATTGAACGACGGGAA
1 -C--TCA-TT----TTTGGAAATAAAA-CAAAATT--TGGAATAAAAT-CATTAAACGGCGGGAA
* * *
5104971 TAAATTCTGAAACGGATTTTATTT
54 TCAATCCCGAAACGGATTTTATTT
5104995 ACTTTTAATT
Statistics
Matches: 196, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
77 9 0.05
78 66 0.34
79 55 0.28
80 6 0.03
81 2 0.01
85 9 0.05
86 8 0.04
88 11 0.06
89 28 0.14
90 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (79 bp):
CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
CGGATTTTATTTTA
Found at i:5104989 original size:89 final size:85
Alignment explanation
Indices: 5104836--5105005 Score: 205
Period size: 89 Copynumber: 2.0 Consensus size: 85
5104826 TTTACTCATT
** * *
5104836 TTTGGAAATAAATAAAATTTGGAATAAAATTGTTAAACGGCGGGAATCAATCCCGAAAAAGATTT
1 TTTGGAAATAAATAAAATTTGGAATAAAATCATTAAACGACGGGAATAAATCCCGAAAAAGATTT
5104901 TATTTACCTTTAATTTCCCA
66 TATTTACCTTTAATTTCCCA
* * * * **
5104921 TTTGGAAATAAAATCAAATTAATGGAATAAAATCCATTGAACGACGGGAATAAATTCTGAAACGG
1 TTTGGAAAT-AAATAAAATT--TGGAATAAAAT-CATTAAACGACGGGAATAAATCCCGAAAAAG
*
5104986 ATTTTATTTACTTTTAATTT
62 ATTTTATTTACCTTTAATTT
5105006 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 9 0.13
86 9 0.13
88 11 0.16
89 41 0.59
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (85 bp):
TTTGGAAATAAATAAAATTTGGAATAAAATCATTAAACGACGGGAATAAATCCCGAAAAAGATTT
TATTTACCTTTAATTTCCCA
Found at i:5106060 original size:259 final size:260
Alignment explanation
Indices: 5105600--5106120 Score: 956
Period size: 259 Copynumber: 2.0 Consensus size: 260
5105590 CCTTTTTCTA
5105600 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
1 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
5105665 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
66 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
5105730 CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
131 CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
5105795 AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
196 AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
*
5105860 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGCAGAGTTTCGGTA
1 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
* * *
5105925 AGAGGAAAAAA-TCAAAGATTATTTTGTGTGTAAAAACCCTTTAGAAATTATGGCCTTTTATAGG
66 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
* *
5105989 CATGGAGATTGTTGGAATTTT-GAAAAACTTATCTACAAAATCTGCCATTAAATCAATTTGATTA
131 CATGGAGATTGTTGGAATTTTGGAAAAA-TTATCCACAAAATCTACCATTAAATCAATTTGATTA
*
5106053 AAAAAATTAATTAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTAT
195 AAAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTAT
5106118 G
260 G
5106119 TC
1 TC
5106121 TGCAGAGGAA
Statistics
Matches: 253, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
258 6 0.02
259 172 0.68
260 75 0.30
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (260 bp):
TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
Found at i:5106154 original size:69 final size:69
Alignment explanation
Indices: 5106064--5106207 Score: 288
Period size: 69 Copynumber: 2.1 Consensus size: 69
5106054 AAAAATTAAT
5106064 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
1 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
5106129 AAAA
66 AAAA
5106133 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
1 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
5106198 AAAA
66 AAAA
5106202 TAAATT
1 TAAATT
5106208 CGTTTTGGGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (69 bp):
TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
AAAA
Found at i:5106933 original size:22 final size:22
Alignment explanation
Indices: 5106905--5106951 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
5106895 AGAAATGTTC
5106905 TTAGTAATTTATTTTGACAAGG
1 TTAGTAATTTATTTTGACAAGG
5106927 TTAGTAATTTATTTTGACAAGG
1 TTAGTAATTTATTTTGACAAGG
5106949 TTA
1 TTA
5106952 AATAAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (22 bp):
TTAGTAATTTATTTTGACAAGG
Found at i:5108937 original size:17 final size:17
Alignment explanation
Indices: 5108893--5108938 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 17
5108883 TGTGTATTAT
5108893 TATTATTTA-AAAT-T-
1 TATTATTTATAAATGTA
5108907 TATTATTTAT---TGTA
1 TATTATTTATAAATGTA
5108921 TATTATTTATAAATGTA
1 TATTATTTATAAATGTA
5108938 T
1 T
5108939 GATTTTCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
12 1 0.04
13 1 0.04
14 19 0.73
17 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TATTATTTATAAATGTA
Found at i:5113533 original size:32 final size:32
Alignment explanation
Indices: 5113497--5113566 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
5113487 GCCATATTTG
*
5113497 TATGATACATTGCATCGGAATGGGGTTGGTGT
1 TATGATACATTCCATCGGAATGGGGTTGGTGT
** **
5113529 TATGATGTATTCCATCGGGGTGGGGTTGGTGT
1 TATGATACATTCCATCGGAATGGGGTTGGTGT
5113561 TATGAT
1 TATGAT
5113567 GCAGGACGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.09, G:0.36, T:0.37
Consensus pattern (32 bp):
TATGATACATTCCATCGGAATGGGGTTGGTGT
Found at i:5116333 original size:144 final size:142
Alignment explanation
Indices: 5116151--5116603 Score: 517
Period size: 144 Copynumber: 3.2 Consensus size: 142
5116141 ATCTATTAAC
* * *
5116151 TGGTTCAATTCCTTCTTGTCTTGGTAAGTTGTCTAAATTGCATACCTTAAGACTTGATTCAAATC
1 TGGTTCAATCCCTTCTTGTATTGGTAA-TTGTCCAAATTGCATACCTTAA-ACTTGATTCAAATC
** * *
5116216 TATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTCATT-AAGCCTCTA
64 TATTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGAA-CCTCTA
5116280 CCAAAACAAATTGAA
128 CCAAAACAAATTGAA
* * *
5116295 TGGTTCAATCCCTTCTTGTCTTGGTACATTGTCCAAATTGGATACCTTACAACTTCATTCAAATC
1 TGGTTCAATCCCTTCTTGTATTGGTA-ATTGTCCAAATTGCATACCTTA-AACTTGATTCAAATC
* * * *
5116360 TATTAGAAGGTCCAATTCCCCAA-AAATTTTGTAATTTCGCAAATTTAACTTCATTGTACCTCTT
64 TATTAGAAGGTCCTATTCCCCAAGAAA-TTTGTAATTTAGCAAATTTAACTTCATTGAACCTCTA
*
5116424 CCAAAACAAATTGAG
128 CCAAAACAAATTGAA
* * * * * *
5116439 TGGTTCAATCCCTTCTTGTATTGGTAGTT-TATCAAAGATGCAGTA-C-T--CCTTGGTTCTAAT
1 TGGTTCAATCCCTTCTTGTATTGGTAATTGT-CCAAA-TTGCA-TACCTTAAACTTGATTCAAAT
* * * *
5116499 CTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGAAAATTTAACCGT-ATTGAATCTCT
63 CTATTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAA-CTTCATTGAACCTCT
*
5116563 CCCAAAACAAATTGAA
127 ACCAAAACAAATTGAA
*
5116579 TGGTTTAATCCCTTCTTGTATTGGT
1 TGGTTCAATCCCTTCTTGTATTGGT
5116604 CGTTTATCAA
Statistics
Matches: 268, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
140 97 0.36
141 5 0.02
142 1 0.00
143 10 0.04
144 150 0.56
145 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (142 bp):
TGGTTCAATCCCTTCTTGTATTGGTAATTGTCCAAATTGCATACCTTAAACTTGATTCAAATCTA
TTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGAACCTCTACCA
AAACAAATTGAA
Found at i:5116568 original size:140 final size:140
Alignment explanation
Indices: 5116203--5116672 Score: 498
Period size: 144 Copynumber: 3.3 Consensus size: 140
5116193 TACCTTAAGA
* ** * *
5116203 CTTGATTCAAATCTATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTC
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTC
* ** *
5116268 ATT-AAGCCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTCTTGGTACATTGTCCAAA
66 ATTGAA-CCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTAT-CAAA
* ** **
5116332 TTGGATACCTTACAA
129 ---GATGCAGTACTC
* * * *
5116347 CTTCATTCAAATCTATTAGAAGGTCCAATTCCCCAA-AAATTTTGTAATTTCGCAAATTTAACTT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAA-TTTGTAATTTAGCAAATTTAACTT
* * *
5116411 CATTGTACCTCTTCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
65 CATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
5116476 ATGCAGTACTC
130 ATGCAGTACTC
* * * *
5116487 CTTGGTTCTAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGAAAATTTAACCGT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAA-CTT
* * * *
5116552 -ATTGAATCTCTCCCAAAACAAATTGAATGGTTTAATCCCTTCTTGTATTGGTCGTTTATCAAAG
65 CATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
**
5116616 ATGTGGTACTTAAGC
130 ATGCAGTAC-T---C
* * *
5116631 CTTGGTTCTAATCTATTAAAAGGTCCTA-TCCCAAAAGAAATT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCC-CAAGAAATT
5116673 GGCAAGCTTT
Statistics
Matches: 281, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
140 122 0.43
141 6 0.02
143 11 0.04
144 141 0.50
145 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (140 bp):
CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTC
ATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGA
TGCAGTACTC
Found at i:5123418 original size:14 final size:14
Alignment explanation
Indices: 5123382--5123420 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
5123372 TTGTTTCACT
*
5123382 GAAAATGACTTCTA
1 GAAAATGATTTCTA
*
5123396 GAAAATGATTTTTA
1 GAAAATGATTTCTA
5123410 GAAAATGATTT
1 GAAAATGATTT
5123421 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:5132457 original size:66 final size:69
Alignment explanation
Indices: 5132350--5132496 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 69
5132340 CAGGGTTTAG
* * *
5132350 TAGCACCACGAGATTGTAAATTATATTTCTTAAAGTAGCACCACTTCTG-TTT-TTTTCTTTTTA
1 TAGCACCACTAGATTGTAAATTATATTTCATAAAGTAGCACCACTACTGTTTTCTTTTCTTTTTA
5132413 AAAT
66 AAAT
*
5132417 TAGCACCACTAGA-TGTAAATTAT-TCTTGATAAAGTAGCACCACTACTGTTTTTCTTTTCTTTT
1 TAGCACCACTAGATTGTAAATTATAT-TTCATAAAGTAGCACCACTACTG-TTTTCTTTTCTTTT
5132480 TAAAAT
64 TAAAAT
* *
5132486 TACCATCACTA
1 TAGCACCACTA
5132497 CACGTGAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
65 1 0.01
66 30 0.43
67 12 0.17
68 3 0.04
69 24 0.34
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (69 bp):
TAGCACCACTAGATTGTAAATTATATTTCATAAAGTAGCACCACTACTGTTTTCTTTTCTTTTTA
AAAT
Found at i:5132477 original size:34 final size:33
Alignment explanation
Indices: 5132380--5132477 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 33
5132370 TTATATTTCT
* *
5132380 TAAAGTAGCACCACTTCTGTTTTTTTCTT-TTTA
1 TAAAGTAGCACCACTACTGTTTTTTT-TTCTTGA
* * *** *
5132413 -AAATTAGCACCACTAGATGTAAATTATTCTTGA
1 TAAAGTAGCACCACTA-CTGTTTTTTTTTCTTGA
5132446 TAAAGTAGCACCACTACTGTTTTTCTTTTCTT
1 TAAAGTAGCACCACTACTGTTTTT-TTTTCTT
5132478 TTTAAAATTA
Statistics
Matches: 47, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
32 15 0.32
33 12 0.26
34 20 0.43
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (33 bp):
TAAAGTAGCACCACTACTGTTTTTTTTTCTTGA
Found at i:5134315 original size:5 final size:5
Alignment explanation
Indices: 5134305--5134331 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
5134295 AACTTATCAA
5134305 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
5134332 ACTGCAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:5136551 original size:25 final size:27
Alignment explanation
Indices: 5136514--5136566 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
5136504 TCAAACATGC
5136514 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
5136540 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
5136566 A
1 A
5136567 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:5138083 original size:26 final size:26
Alignment explanation
Indices: 5138053--5138134 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
5138043 TGAAATGCCC
5138053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
5138079 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
5138105 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5138131 ATCA
1 ATCA
5138135 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5139250 original size:17 final size:17
Alignment explanation
Indices: 5139228--5139262 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5139218 TATTCTACTT
*
5139228 TAATTTTATTATTGTTA
1 TAATTTTATTATTATTA
5139245 TAATTTTATTATTATTA
1 TAATTTTATTATTATTA
5139262 T
1 T
5139263 TATCATCATT
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:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TAATTTTATTATTATTA
Found at i:5139256 original size:3 final size:3
Alignment explanation
Indices: 5139233--5139283 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
5139223 TACTTTAATT
* * * *
5139233 TTA TTA TTG TTA TAA TT- TTA TTA TTA TTA TTA TCA TCA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
5139281 TTA
1 TTA
5139284 GTGTATAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5139580 original size:15 final size:15
Alignment explanation
Indices: 5139561--5139596 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5139551 ATTATCTCTA
5139561 ATATATGTATATATT
1 ATATATGTATATATT
* *
5139576 GTATATGTTTATATT
1 ATATATGTATATATT
5139591 ATATAT
1 ATATAT
5139597 ATATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:5139899 original size:22 final size:21
Alignment explanation
Indices: 5139863--5139903 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
5139853 ATGTTAGTAC
5139863 ATATATTTTATTATACGTATAT
1 ATATATTTTATTATA-GTATAT
5139885 ATATATTTT-TATATAGTAT
1 ATATATTTTAT-TATAGTAT
5139904 TATTTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATATTTTATTATAGTATAT
Found at i:5151251 original size:40 final size:40
Alignment explanation
Indices: 5151195--5151271 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
5151185 ATATTATGCT
5151195 TAAAAAAATAAAATCAAGATGAAAACCTG-AAAGGGCATC
1 TAAAAAAATAAAATCAAGATGAAAACCTGAAAAGGGCATC
*
5151234 TAAAAAAA-AAGAGATCAAGGTGAAAACCTGAAAAGGGC
1 TAAAAAAATAA-A-ATCAAGATGAAAACCTGAAAAGGGC
5151272 GTCTTGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 2 0.06
39 9 0.26
40 16 0.47
41 7 0.21
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.13
Consensus pattern (40 bp):
TAAAAAAATAAAATCAAGATGAAAACCTGAAAAGGGCATC
Found at i:5152172 original size:14 final size:15
Alignment explanation
Indices: 5152153--5152185 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5152143 CGCTGAGGTA
*
5152153 TTTTC-AATTTCTGT
1 TTTTCAAATGTCTGT
5152167 TTTTCAAATGTCTGT
1 TTTTCAAATGTCTGT
5152182 TTTT
1 TTTT
5152186 AATCAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTCAAATGTCTGT
Found at i:5152344 original size:13 final size:13
Alignment explanation
Indices: 5152326--5152356 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
5152316 CTCTGAGGTA
5152326 TTTTCAATTTCTG
1 TTTTCAATTTCTG
5152339 TTTTCAATTTCTG
1 TTTTCAATTTCTG
5152352 TTTTC
1 TTTTC
5152357 CAAAATCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:5152375 original size:85 final size:85
Alignment explanation
Indices: 5152086--5152604 Score: 495
Period size: 86 Copynumber: 6.0 Consensus size: 85
5152076 TTTGATGTTT
*
5152086 AATTTCTGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTAC-GCTGAG
1 AATTTCTGTTTTCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACTGCTGAG
5152150 GTATTTTCAATTTCTGTTTTTCA
63 GTATTTTCAATTTCTGTTTTTCA
* * *
5152173 AATGTCTGTTTT--TAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAG
1 AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CAC-TGCTGAG
*
5152236 GTATTTTCAGTTTCTGTTTTTCA
63 GTATTTTCAATTTCTGTTTTTCA
* * * *
5152259 AATTTTTATTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTCAGGACACT-CTGAG
1 AATTTCT-GTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-CACTGCTGAG
5152323 GTATTTTCAATTTCTG-TTTTC-
63 GTATTTTCAATTTCTGTTTTTCA
*
5152344 AATTTCTGTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GCA-TGCTGAGGA
1 AATTTCTGTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACTGCTGAGGT
5152407 ATTTTCAATTTCTGTTTTTTTC-
65 ATTTTCAATTTCTG--TTTTTCA
* * * * * *
5152429 AATTTGTACTTTTCAAAAATTAACTCATATTGCGAGAGATGAGTTGATCCTCGAGTCACATGCCG
1 AATTTCT-GTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-G-CAC-TGCTG
** ** *
5152494 AGGTATTTTCAAAATCTACTTTCCA
61 AGGTATTTTCAATTTCTGTTTTTCA
** * * *
5152519 AA-TTAAG-TTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCAGCT-CT
1 AATTTCTGTTTTC--AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CA-CTGCT
* *
5152581 GAGCTATTATCAATTTCTGTTTTT
60 GAGGTATTTTCAATTTCTGTTTTT
5152605 TAGTTTATGT
Statistics
Matches: 359, Mismatches: 48, Indels: 49
0.79 0.11 0.11
Matches are distributed among these distances:
81 1 0.00
82 24 0.07
83 1 0.00
84 40 0.11
85 54 0.15
86 76 0.21
87 39 0.11
88 25 0.07
89 76 0.21
90 5 0.01
91 18 0.05
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (85 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACTGCTGAGGTA
TTTTCAATTTCTGTTTTTCA
Found at i:5152503 original size:173 final size:172
Alignment explanation
Indices: 5152094--5152565 Score: 516
Period size: 173 Copynumber: 2.7 Consensus size: 172
5152084 TTAATTTCTG
* *
5152094 TTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTAC--GCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGTACATGCTGAGGTATTTT
* * *
5152157 CAATTTCTGTTTTTCAAATGTCTGTTTT--TAATCAAATCATATTGCGAGAGGTGAGTTGAGCCT
65 CAATTTCTG-TTTTC-AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
5152220 CGGCTCACATGCTGAGGTATTTTCAGTTTCTGTTTTTCAAATTTTTAT
128 CGG--C-CATGCTGAGGAATTTTCAATTTCTGTTTTTCAAATTTGTAC
* * *
5152268 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTC-AGGACACT-CTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTACA-TGCTGAGGTATTTT
5152330 CAATTTCTGTTTTCAATTTCTGTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 CAATTTCTGTTTTCAATTTCTGTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
5152395 -G-CATGCTGAGGAATTTTCAATTTCTGTTTTTTTC-AATTTGTAC
129 GGCCATGCTGAGGAATTTTCAATTTCTG--TTTTTCAAATTTGTAC
* * * *
5152438 TTTTCAAAAATTAACTCATATTGCGAGAGATGAGTTGATCCTCGAGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT-ACATGCTGAGGTATTTT
** * * * ** *
5152503 CAAAATCTACTTTCCAAATTAAG-TTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
65 CAATTTCT-GTTTTCAATTTCTGTTTTC--AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAG
5152566 TCTTGGCTCA
Statistics
Matches: 255, Mismatches: 27, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
169 23 0.09
170 12 0.05
171 52 0.20
172 9 0.04
173 79 0.31
174 51 0.20
175 29 0.11
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (172 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTACATGCTGAGGTATTTTC
AATTTCTGTTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CCATGCTGAGGAATTTTCAATTTCTGTTTTTCAAATTTGTAC
Found at i:5152545 original size:260 final size:255
Alignment explanation
Indices: 5152086--5152603 Score: 611
Period size: 260 Copynumber: 2.0 Consensus size: 255
5152076 TTTGATGTTT
*
5152086 AATTTCTGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGCTGAGG
1 AATTTCTGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACGCTGAGG
* ** *
5152151 TATTTTCAATTTCTGTTTTTCAAATGTCTGTTTTTAATCAAATCATATTGCGAGAGGTGAGTTGA
64 AATTTTCAATTTCTGTTTTTCAAATGTCTGTTTAAAATCAAATCATATTGCGAGAGATGAGTTGA
* *** ** * ** *
5152216 GCCTCGGCTCACATGCTGAGGTATTTTCAGTTTCTGTTTTTCAAATTTTTATTTTTCAAAATCAA
129 GCCTCGGCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAA--TTTAAGTTTCAAAACCAA
* *
5152281 CTCATATTGCAAGAGGTGAGTTGAG-CTTCAGG-ACA-CTCTGAGGTATTTTCAATTTCTGTTTT
192 CTCATATTGCAAGAGGTGAGTTGAGTCTT--GGCACAGCTCTGAGCTATTATCAATTTCTGTTTT
5152343 C
255 C
*
5152344 AATTTCTGTTTTCCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GCATGCTGAGGA
1 AATTTCTGTTTT-CAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACGCTGAGGA
* * *
5152407 ATTTTCAATTTCTGTTTTTTTCAATTTGTACT-TTTCAAAAATTAACTCATATTGCGAGAGATGA
65 ATTTTCAATTTCTG--TTTTTCAA-ATGT-CTGTTT--AAAATCAAATCATATTGCGAGAGATGA
*
5152471 GTTGATCCTCGAG-TCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAA-TTAAGTTTCAAAA
124 GTTGAGCCTCG-GCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAATTTAAGTTTC--AA
* *
5152534 AGACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCAGCTCTGAGCTATTATCAATTTCT
186 A-ACCAACTCATATTGCAAGAGGTGAGTTGAGTCTTGGCACAGCTCTGAGCTATTATCAATTTCT
5152599 GTTTT
250 GTTTT
5152604 TTAGTTTATG
Statistics
Matches: 222, Mismatches: 24, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
255 23 0.10
257 15 0.07
258 54 0.24
259 9 0.04
260 92 0.41
261 29 0.13
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (255 bp):
AATTTCTGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACGCTGAGGAA
TTTTCAATTTCTGTTTTTCAAATGTCTGTTTAAAATCAAATCATATTGCGAGAGATGAGTTGAGC
CTCGGCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAATTTAAGTTTCAAAACCAACTCA
TATTGCAAGAGGTGAGTTGAGTCTTGGCACAGCTCTGAGCTATTATCAATTTCTGTTTTC
Found at i:5152786 original size:44 final size:44
Alignment explanation
Indices: 5152718--5152816 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
5152708 AGATTTGGCC
** * *
5152718 TCCCTGAAGTCGCAGTAGAGTAGGTCAAAGTTACAAGTCTTGTA
1 TCCCTGAAGTTACAATAGAATAGGTCAAAGTTACAAGTCTTGTA
* * *
5152762 TCCCTGAAGTTACAATAGAATAGGTTAAAGTTGCAAGTCTTGTC
1 TCCCTGAAGTTACAATAGAATAGGTCAAAGTTACAAGTCTTGTA
5152806 TCCCTGAAGTT
1 TCCCTGAAGTT
5152817 GCAGTGGAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
TCCCTGAAGTTACAATAGAATAGGTCAAAGTTACAAGTCTTGTA
Found at i:5154293 original size:17 final size:17
Alignment explanation
Indices: 5154271--5154305 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5154261 TATTCTACTT
*
5154271 TAATTTTATTATTGTTA
1 TAATTTTATTATTATTA
5154288 TAATTTTATTATTATTA
1 TAATTTTATTATTATTA
5154305 T
1 T
5154306 TATCATCATT
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:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TAATTTTATTATTATTA
Found at i:5154299 original size:3 final size:3
Alignment explanation
Indices: 5154276--5154326 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
5154266 TACTTTAATT
* * * *
5154276 TTA TTA TTG TTA TAA TT- TTA TTA TTA TTA TTA TCA TCA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
5154324 TTA
1 TTA
5154327 GTGTATAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5154628 original size:15 final size:15
Alignment explanation
Indices: 5154609--5154655 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
5154599 ATTATCTCTA
5154609 ATATATGTATATATT
1 ATATATGTATATATT
* *
5154624 GTATATGTTTATATT
1 ATATATGTATATATT
*
5154639 ATATATATATATATT
1 ATATATGTATATATT
5154654 AT
1 AT
5154656 TTCTTTACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:5154954 original size:20 final size:21
Alignment explanation
Indices: 5154909--5154954 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
5154899 TTACCAATGT
*
5154909 TAGTACATATATTTTATTATA
1 TAGTATATATATTTTATTATA
*
5154930 -CGTATATATATTTT-TTATA
1 TAGTATATATATTTTATTATA
5154949 TAGTAT
1 TAGTAT
5154955 TATTTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TAGTATATATATTTTATTATA
Found at i:5159412 original size:19 final size:19
Alignment explanation
Indices: 5159388--5159485 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
5159378 AATGTATAAG
5159388 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5159407 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5159426 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5159443 GATATGCAAACTTAGATAT
1 GATATGCAATCTTAGATAT
5159462 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
5159483 GAT
1 GAT
5159486 CTTGTAATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.23
19 46 0.65
21 9 0.13
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5159435 original size:36 final size:37
Alignment explanation
Indices: 5159388--5159494 Score: 135
Period size: 36 Copynumber: 2.8 Consensus size: 37
5159378 AATGTATAAG
5159388 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGTAATCTTAGATAT
* *
5159426 GATA-CAATCTTAGATATGATATGCAAACTTAGATAT
1 GATAGCAATCTTAGATATGATATGTAATCTTAGATAT
*
5159462 GATATGCAATCTTGAAGATATGATCTTGTAATC
1 GATA-GCAATCTT--AGATATGAT-ATGTAATC
5159495 ATGGAGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
36 34 0.58
38 11 0.19
40 9 0.15
41 5 0.08
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:5161503 original size:25 final size:24
Alignment explanation
Indices: 5161444--5161490 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
5161434 AGAACCAATC
5161444 AAATTTGAAAACATTCTTTTTGAA
1 AAATTTGAAAACATTCTTTTTGAA
*
5161468 AAATTTGAAAACGTTCTTTTTGA
1 AAATTTGAAAACATTCTTTTTGA
5161491 CTAACTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
AAATTTGAAAACATTCTTTTTGAA
Found at i:5168338 original size:126 final size:126
Alignment explanation
Indices: 5168113--5168373 Score: 389
Period size: 126 Copynumber: 2.1 Consensus size: 126
5168103 GTCGACTTTA
* * ** *
5168113 TAAAACAAAGGCGAAGTTTGATGTTTAGCAATTCGAGGGTTCGTACCCTAATGTGTTGGGTTTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTGCTGGGTTTCA
*
5168178 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCC-TGTTTTCTAAACCT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAA-CT
* * * *
5168239 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAGGAATCGTGCTCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTGCTGGGTTTCA
* *
5168304 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAATTTCGTCCGTGTTTTCTAAACT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAACT
5168365 TCAAAACAA
1 T-AAAACAA
5168374 GGAAATATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
126 103 0.85
127 18 0.15
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTGCTGGGTTTCA
ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAACT
Found at i:5168421 original size:126 final size:126
Alignment explanation
Indices: 5168113--5168431 Score: 342
Period size: 126 Copynumber: 2.5 Consensus size: 126
5168103 GTCGACTTTA
* * * *** * * * *
5168113 TAAAACAAAGGCGAA-GTTTGATGTTTAGCAATTCGAGGGTTCGTACCCTAATGTGTTGGGTTTC
1 TAAAACAAAGG-AAATGTTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGCTGGGTTTC
* *
5168177 AATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCT
65 GATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCT
** * * * *
5168239 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAGGAATCGTGCTCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGAAATGTTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGCTGGGTTTCG
* *
5168304 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAATTTCGTCCGTGTTTTCTAAA-CT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCC-TGTTTTCTAAACCT
* * **
5168365 TCAAAAC-AAGGAAATATTTTG-TGTTTGGAAATTTTGAGAAATCATGCCCT-ACGTGCTGGGTT
1 T-AAAACAAAGGAAAT-GTTTGATGTTTAGAAA-TTCAAGAAATCATGCCCTAACGTGCTGGGTT
5168427 TCGAT
63 TCGAT
5168432 TTACCGTTTG
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
125 1 0.01
126 131 0.79
127 33 0.20
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (126 bp):
TAAAACAAAGGAAATGTTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGCTGGGTTTCG
ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCT
Found at i:5170246 original size:26 final size:26
Alignment explanation
Indices: 5170217--5170324 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
5170207 TGGTACAAAT
*
5170217 TGATAATGGGTTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATATTCCA
*
5170243 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
**
5170269 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
5170295 TGATAATGGTTTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATATTCCA
5170321 TGAT
1 TGAT
5170325 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:5172952 original size:143 final size:143
Alignment explanation
Indices: 5172694--5172980 Score: 556
Period size: 143 Copynumber: 2.0 Consensus size: 143
5172684 ATCAAATCGG
*
5172694 TTTCCTAGAAATATACATGACGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
1 TTTCCTAGAAATATACATGACGTTAAGGTATGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
5172759 GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
66 GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
5172824 GCACAGCTTCCAT
131 GCACAGCTTCCAT
*
5172837 TTTCCTAGAAATATACATGACGTTAAGGTATGGCAATGGCGGTGTGTATGTCTAGGATTGGATTC
1 TTTCCTAGAAATATACATGACGTTAAGGTATGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
5172902 GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
66 GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
5172967 GCACAGCTTCCAT
131 GCACAGCTTCCAT
5172980 T
1 T
5172981 CACTTTAACC
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 142 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (143 bp):
TTTCCTAGAAATATACATGACGTTAAGGTATGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
GCACAGCTTCCAT
Found at i:5173220 original size:19 final size:19
Alignment explanation
Indices: 5173196--5173241 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
5173186 CTCTCTTTCT
5173196 TTTGCATT-CATTCCATACA
1 TTTGCATTGCATTCCAT-CA
*
5173215 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
5173234 TTTGCATT
1 TTTGCATT
5173242 AAACTTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:5175453 original size:16 final size:16
Alignment explanation
Indices: 5175429--5175467 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
5175419 TAACAAAGGC
5175429 AAAAAAAAACGA-AAAG
1 AAAAAAAAA-GAGAAAG
*
5175445 AAAAGAAAAGAGAAAG
1 AAAAAAAAAGAGAAAG
5175461 AAAAAAA
1 AAAAAAA
5175468 CAAAAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAGAAAG
Found at i:5176506 original size:18 final size:18
Alignment explanation
Indices: 5176485--5176521 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5176475 ATTAACTTAT
5176485 TCATTTTGAGTTAATTTC
1 TCATTTTGAGTTAATTTC
5176503 TCATTTTGAGTTAATTTC
1 TCATTTTGAGTTAATTTC
5176521 T
1 T
5176522 TTCTTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TCATTTTGAGTTAATTTC
Found at i:5177266 original size:64 final size:64
Alignment explanation
Indices: 5177192--5177316 Score: 198
Period size: 64 Copynumber: 2.0 Consensus size: 64
5177182 TTCATAACAC
* * *
5177192 ATCTAGTTAGGAGCATTTGATTTATTTTGATCAT-AGCATCCTAGTTATTTGACATAAGCATCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATGA-CATCCTAATTATTTGACATAAGCATCAT
*
5177256 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATGACATCCTAATTATTTGGCATAAGCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATGACATCCTAATTATTTGACATAAGCAT
5177317 GGATACATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
64 55 0.98
65 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (64 bp):
ATCTAGTTAGGAGCATTTGATTCATTTCGATCATGACATCCTAATTATTTGACATAAGCATCAT
Found at i:5177543 original size:45 final size:45
Alignment explanation
Indices: 5177492--5177676 Score: 119
Period size: 45 Copynumber: 4.2 Consensus size: 45
5177482 TCCCTAAGAA
* *
5177492 GTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCTTGAAGTT
1 GTAGTGGAGCAGATTGAAGATTGTAGATCTTGTCTCCTTGAAGTT
* * * * *
5177537 GTAGTGGAACAGATCGAAAATGGT-GAACCTTGTCT-CTCTGAAGTT
1 GTAGTGGAGCAGATTGAAGATTGTAG-ATCTTGTCTCCT-TGAAGTT
* * ** ** * * *
5177582 GCAGTGGAGCAGATTTAAG-CCG-CCATCCTATCTCCTT-AAGTA
1 GTAGTGGAGCAGATTGAAGATTGTAGATCTTGTCTCCTTGAAGTT
* ** * *
5177624 GTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTT
1 GTAGTGGAGCAGATTGAAGATTGTAGATCTTGTCTCCTTGAAGTT
*
5177669 GCAGTGGA
1 GTAGTGGA
5177677 ACTGATCGAA
Statistics
Matches: 100, Mismatches: 33, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
42 18 0.18
43 8 0.08
44 16 0.16
45 58 0.58
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (45 bp):
GTAGTGGAGCAGATTGAAGATTGTAGATCTTGTCTCCTTGAAGTT
Found at i:5177627 original size:132 final size:132
Alignment explanation
Indices: 5177383--5177822 Score: 634
Period size: 132 Copynumber: 3.3 Consensus size: 132
5177373 GGTGAATTTA
* * *
5177383 CAGATCTCGTCTCCCTGAAGTTGCAGTGGAATAGATCGAAGACGGCGAATCTCGTCTCTCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAG
* * *
5177448 TTGCAGTGGAGCAAATTTAAGCTACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTGAAGAT
66 TTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTGAAGAT
5177513 TG
131 TG
* * * * * * *
5177515 TAGATCTTGTCTCCTTGAAGTTGTAGTGGAACAGATCGAAAATGGTGAACCTTGTCTCTCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAG
* * *
5177580 TTGCAGTGGAGCAGATTTAAGCCGCCATCCTATCTCCTTAAGTAGTAGTGGAGTAGGCTGAAGAT
66 TTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTGAAGAT
5177645 TG
131 TG
* *
5177647 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACTGATCGAAGACGGCGAATCTTGTCTCCCTGACC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTGA--
* * *
5177712 AG-T--AGTGGAACGGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAG
64 AGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTGAAG
5177774 ATTG
129 ATTG
* *
5177778 CAGATCTTGTCTCTCTGAAGTTGCAGTGGAACAGATCAAAGACGG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGG
5177823 TGAGCCTTAA
Statistics
Matches: 273, Mismatches: 33, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
131 100 0.37
132 170 0.62
133 1 0.00
134 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (132 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAG
TTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTGAAGAT
TG
Found at i:5177879 original size:131 final size:130
Alignment explanation
Indices: 5177383--5177897 Score: 380
Period size: 132 Copynumber: 3.9 Consensus size: 130
5177373 GGTGAATTTA
* * * * *** *
5177383 CAGATCTCGTCTCCCTGAAGTTGCAGTGGAATAGATCGAAGACGGCGAATCTCGTCTCTCTGA-A
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAACCTTAACTCCCTGACA
* ** * * * * * *
5177447 GTTGCAGTGGAGCAAATTTAAG-CTACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTGAAG
66 G-T--AGTGGAACGGACTGAAGAC-ACAATCCTACCTCCCTAAGCAGTAGTGGAGTAGGCTGAAG
5177511 ATTG
127 ATTG
* * * * * ** *
5177515 TAGATCTTGTCTCCTTGAAGTTGTAGTGGAACAGATCGAAA-ATGGTGAACCTTGTCTCTCTGA-
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC-AAAGACGGCGAACCTTAACTCCCTGAC
* * * * * * * * * *
5177578 AGTTGCAGTGGAGCAGATTTAAGCCGCCATCCTATCTCCTTAAGTAGTAGTGGAGTAGGCTGAAG
65 AG-T--AGTGGAACGGACTGAAGACACAATCCTACCTCCCTAAGCAGTAGTGGAGTAGGCTGAAG
5177643 ATTG
127 ATTG
* * * **
5177647 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACTGATCGAAGACGGCGAATCTTGTCTCCCTGACC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAACCTTAACTCCCTGA-C
* * * * *
5177712 AGTAGTGGAACGGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
65 AGTAGTGGAACGGACTGAAGACACAATCCTACCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
5177777 G
130 G
* * * *
5177778 CAGATCTTGTCTCTCTGAAGTTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAAC-CCCTTA-A
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAACCTTAACTCCCTGACA
* * *
5177841 GTAGTAGGGTAACAGG-CTGAATTACA-AATCTTACCTCCCTAAGCAGTAGTAGAGTAG
66 GTAGT--GG-AAC-GGACTGAA-GACACAATCCTACCTCCCTAAGCAGTAGTGGAGTAG
5177898 ATCAAAGATG
Statistics
Matches: 327, Mismatches: 46, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
128 6 0.02
130 7 0.02
131 141 0.43
132 167 0.51
133 4 0.01
134 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (130 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAACCTTAACTCCCTGACA
GTAGTGGAACGGACTGAAGACACAATCCTACCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
Found at i:5178121 original size:88 final size:88
Alignment explanation
Indices: 5178000--5178510 Score: 718
Period size: 88 Copynumber: 5.8 Consensus size: 88
5177990 AAATCAACAA
* * * *
5178000 TTCGTATCTCCTTGAAGTTTCAACGGAGAAGATCGAGTCTACAAACCTCTTCTCCCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
5178065 GTTGGAGTGGCTCGAAGCCACAT
66 ATTGGAGCGGCTCGAAGCCACAG
* *
5178088 TTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCTCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
5178153 ATTGGAGCGGCTCGAAGCCACAG
66 ATTGGAGCGGCTCGAAGCCACAG
** *
5178176 TTCGTATCTCCTTGAAG-TTCTAGCGGAGTAGATCGAAACTACAAATCTCTTCTCCTTGAAATGG
1 TTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGG
*
5178240 CATTGGAGCGGCTTGAAGCCACAG
65 CATTGGAGCGGCTCGAAGCCACAG
* * *
5178264 TTAGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
5178329 ACTGGAGTGGCTCGAAGCCATAG
66 ATTGGAGCGGCTCGAAGCCACAG
* * * *
5178352 TTCGTATCTCCTTGAAGTTTGAGCAGAGTAGATCGAGGCTACAAATCTCTTTTCCCTAAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
*
5178417 ATTGGAGCGGCTCGAAGCCACGG
66 ATTGGAGCGGCTCGAAGCCACAG
* * * * ** * *
5178440 TTCATATCTCCTTGAAGTTCCAGTGGGGTAGATCGAACCTACAAATATCTTCTCTCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
5178505 ATTGGA
66 ATTGGA
5178511 ACAGACTAAA
Statistics
Matches: 375, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 3 0.01
88 370 0.99
89 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (88 bp):
TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
ATTGGAGCGGCTCGAAGCCACAG
Found at i:5178318 original size:44 final size:44
Alignment explanation
Indices: 5178006--5178402 Score: 149
Period size: 44 Copynumber: 9.0 Consensus size: 44
5177996 ACAATTCGTA
* * * *
5178006 TCTCCTTGAAGTTTCAACGGAGAAGATCG-AGTCTACAAACCTCT
1 TCTCCTTGAAGTTGCAGCGGAGTAGATCGAAG-CTACAAATCTCT
* * * * * * * *
5178050 TCTCCCTGAAATGGC-GTTGGAGTGGCTCGAAGC--CACATTTCGT
1 TCTCCTTGAAGTTGCAG-CGGAGTAGATCGAAGCTACAAATCTC-T
* * *
5178093 ATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCT
1 -TCTCCTTGAAGTTGCAGCGGAGTAGATCGAAGCTACAAATCTCT
* * ** ** * * *
5178138 TCT-CTCTGAAATGGCATTGGAGCGGCTCGAAGCCAC-AGT-TCGT
1 TCTCCT-TGAAGTTGCAGCGGAGTAGATCGAAGCTACAAATCTC-T
*
5178181 ATCTCCTTGAAGTT-CTAGCGGAGTAGATCGAAACTACAAATCTCT
1 -TCTCCTTGAAGTTGC-AGCGGAGTAGATCGAAGCTACAAATCTCT
* * ** ** * * * * *
5178226 TCTCCTTGAAATGGCATTGGAGCGGCTTGAAGCCAC-AGT-TAGT
1 TCTCCTTGAAGTTGCAGCGGAGTAGATCGAAGCTACAAATCT-CT
* *
5178269 ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCT
1 -TCTCCTTGAAGTTGCAGCGGAGTAGATCGAAGCTACAAATCTCT
* * * * *
5178314 TCTCCTTGAAATGGCA-CTGGAGTGGCTCGAAGC--CATAGT-TCGT
1 TCTCCTTGAAGTTGCAGC-GGAGTAGATCGAAGCTACA-AATCTC-T
* *
5178357 ATCTCCTTGAAGTTTG-AGCAGAGTAGATCGAGGCTACAAATCTCT
1 -TCTCCTTGAAG-TTGCAGCGGAGTAGATCGAAGCTACAAATCTCT
5178402 T
1 T
5178403 TTCCCTAAAA
Statistics
Matches: 241, Mismatches: 84, Indels: 56
0.63 0.22 0.15
Matches are distributed among these distances:
42 12 0.05
43 14 0.06
44 183 0.76
45 19 0.08
46 13 0.05
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTCCTTGAAGTTGCAGCGGAGTAGATCGAAGCTACAAATCTCT
Found at i:5178358 original size:264 final size:264
Alignment explanation
Indices: 5178003--5178510 Score: 811
Period size: 264 Copynumber: 1.9 Consensus size: 264
5177993 TCAACAATTC
* * **
5178003 GTATCTCCTTGAAGTTTCAACGGAGAAGATCGAGTCTACAAACCTCTTCTCCCTGAAATGGCGTT
1 GTATCTCCTTGAAGTTCCAACGGAGAAGATCGAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
*
5178068 GGAGTGGCTCGAAGCCACATTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
66 GGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
* * * *
5178133 TCTCTTCTCTCTGAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTCTA
131 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
*
5178198 GCGGAGTAGATCGAAACTACAAATCTCTTCTC-CTTGAAATGGCATTGGAGCGGCTTGAAGCCAC
196 GCGGAGTAGATCGAAACTACAAATATCTTCTCTC-TGAAATGGCATTGGAGCGGCTTGAAGCCAC
5178262 AGTTA
260 AGTTA
* * * *
5178267 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCACT
1 GTATCTCCTTGAAGTTCCAACGGAGAAGATCGAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
* *
5178332 GGAGTGGCTCGAAGCCATAGTTCGTATCTCCTTGAAGTTTGAGCAGAGTAGATCGAGGCTACAAA
66 GGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
* *
5178397 TCTCTTTTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACGGTTCATATCTCCTTGAAGTTCCA
131 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
* * *
5178462 GTGGGGTAGATCGAACCTACAAATATCTTCTCTCTGAAATGGCATTGGA
196 GCGGAGTAGATCGAAACTACAAATATCTTCTCTCTGAAATGGCATTGGA
5178511 ACAGACTAAA
Statistics
Matches: 222, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
264 221 1.00
265 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (264 bp):
GTATCTCCTTGAAGTTCCAACGGAGAAGATCGAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
GGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
GCGGAGTAGATCGAAACTACAAATATCTTCTCTCTGAAATGGCATTGGAGCGGCTTGAAGCCACA
GTTA
Found at i:5178565 original size:44 final size:44
Alignment explanation
Indices: 5178507--5178828 Score: 209
Period size: 44 Copynumber: 7.1 Consensus size: 44
5178497 GAAATGGCAT
* * * *
5178507 TGGAACAGACTAAAGATACCAATTTTATCTCCCTGAAGTTGTAG
1 TGGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
5178551 TGGAGCAGATTAAAGCTACAAACCTTATCCCCCTGAAGTGGCAG
1 TGGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* ** * * * * *
5178595 TGGGGCAGGTTGAAGTTACAAGTCTTATCTCCTTGGAGTTGCAG
1 TGGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
** * *
5178639 TGGAGCAGACTGGAGATAGCAAATCTTATCTCCATGAAGTTGCAA
1 TGGAGCAGACTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAG
* * * *
5178684 T-GAGGCAGATTGAAGCTACAA-ACCACAAACCTTATCTCCTTGAATTTGCAG
1 TGGA-GC--A--G-A-CTA-AAGA-TACAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
5178735 TGGAGCAGACTGAAGATAGCAAACCTTATCTCCCCGAAGTAGTAG
1 TGGAGCAGACTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAG
** * * *
5178780 TGGAGCAGGTTAAA-TTATAAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
5178823 TGGAGC
1 TGGAGC
5178829 GGGTCAAAAC
Statistics
Matches: 213, Mismatches: 52, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
43 26 0.12
44 89 0.42
45 60 0.28
46 1 0.00
47 2 0.01
49 2 0.01
50 1 0.00
51 28 0.13
52 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
Found at i:5178743 original size:51 final size:52
Alignment explanation
Indices: 5178658--5178759 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
5178648 CTGGAGATAG
* * *
5178658 CAAATCTTATCTCCATGAAGTTGCAATGAGGCAGATTGAAGCTA-CAAACCA
1 CAAACCTTATCTCCATGAAGTTGCAATGAGGCAGACTGAAGATAGCAAACCA
* * *
5178709 CAAACCTTATCTCCTTGAATTTGCAGTG-GAGCAGACTGAAGATAGCAAACC
1 CAAACCTTATCTCCATGAAGTTGCAATGAG-GCAGACTGAAGATAGCAAACC
5178760 TTATCTCCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
50 1 0.02
51 36 0.84
52 6 0.14
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (52 bp):
CAAACCTTATCTCCATGAAGTTGCAATGAGGCAGACTGAAGATAGCAAACCA
Found at i:5180545 original size:17 final size:17
Alignment explanation
Indices: 5180511--5180558 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
5180501 TTTTAACTGC
*
5180511 ATTTATTTTTATTTTTAT
1 ATTTATTTTT-TTGTTAT
5180529 ATTTATTTTTTTGTTAT
1 ATTTATTTTTTTGTTAT
* *
5180546 AGTTATTATTTTG
1 ATTTATTTTTTTG
5180559 AGACCTTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTATTTTTTTGTTAT
Found at i:5181816 original size:126 final size:126
Alignment explanation
Indices: 5181591--5181823 Score: 367
Period size: 126 Copynumber: 1.8 Consensus size: 126
5181581 GTCGACTTTA
* * ** *
5181591 TAAAACAAAGGCGAAGTTTGATGTTTAGCAATTCGAGGGTTCATGCCCTAATGTGTTGGGTTTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCA
*
5181656 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCT
* * *
5181717 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAGGAATCATGCTCTAATGTGATGGGTTTCG
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCA
* *
5181782 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAATTT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTT
5181824 TTTTCGTGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 96 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (126 bp):
TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCA
ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCT
Found at i:5181868 original size:126 final size:126
Alignment explanation
Indices: 5181607--5181875 Score: 328
Period size: 126 Copynumber: 2.1 Consensus size: 126
5181597 AAAGGCGAAG
* * ** * *
5181607 TTTGATGTTTAGCAATTCGAGGGTTCATGCCCTAATGTGTTGGGTTTCAATCTTTCGTTTGTTTA
1 TTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCAATCTTTCGTTTGTCTA
* * *
5181672 AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGGCGATG
66 AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGACAATA
* *
5181733 TTTGATGTTTAGAAATTCAAGGAATCATGCTCTAATGTGATGGGTTTCGATCTTTCGTTTGTCTA
1 TTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCAATCTTTCGTTTGTCTA
* * ** * *
5181798 AATAATCAGATTTCCCTTTTAAATTTTTTTCGTGTTTTCTAAA-CTTCAAAAC-AAGACAATA
66 AATAATCAAATTTCCC-TTTAAAATTTCGTCCTATTTTCTAAACCTT-AAAACAAAGACAATA
*
5181859 TTTCG-TGTTTGGAAATT
1 TTT-GATGTTTAGAAATT
5181876 TTGAAAAATC
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
126 95 0.78
127 27 0.22
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (126 bp):
TTTGATGTTTAGAAATTCAAGGAATCATGCCCTAATGTGATGGGTTTCAATCTTTCGTTTGTCTA
AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGACAATA
Found at i:5181903 original size:126 final size:126
Alignment explanation
Indices: 5181607--5181909 Score: 301
Period size: 126 Copynumber: 2.4 Consensus size: 126
5181597 AAAGGCGAAG
* * *** * * * *
5181607 TTTGATGTTTAGCAATTCGAGGGTTCATGCCCTAATGTGTTGGGTTTCAATCTTTCGTTTGTTTA
1 TTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGATGGGTTTCGATCTTTCGTTTGTCTA
* * *
5181672 AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGGCGATG
66 AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGACAATA
* * *
5181733 TTTGATGTTTAGAAATTCAAGGAATCATGCTCTAATGTGATGGGTTTCGATCTTTCGTTTGTCTA
1 TTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGATGGGTTTCGATCTTTCGTTTGTCTA
* * ** * *
5181798 AATAATCAGATTTCCCTTTTAAATTTTTTTCGTGTTTTCTAAA-CTTCAAAAC-AAGACAATA
66 AATAATCAAATTTCCC-TTTAAAATTTCGTCCTATTTTCTAAACCTT-AAAACAAAGACAATA
* * * *
5181859 TTTCG-TGTTTGGAAATTTTGAA-AAATCGTGCCCT-ACGTGCTGGGTTTCGAT
1 TTT-GATGTTTAGAAA--TTCAAGAAATCATGCCCTAACGTGATGGGTTTCGAT
5181910 TTACCGTTTG
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
126 108 0.73
127 36 0.24
128 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (126 bp):
TTTGATGTTTAGAAATTCAAGAAATCATGCCCTAACGTGATGGGTTTCGATCTTTCGTTTGTCTA
AATAATCAAATTTCCCTTTAAAATTTCGTCCTATTTTCTAAACCTTAAAACAAAGACAATA
Found at i:5190148 original size:3 final size:3
Alignment explanation
Indices: 5190137--5190170 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
5190127 CCTTTTTTTG
5190137 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5190171 CTCTATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:5191272 original size:42 final size:42
Alignment explanation
Indices: 5191213--5191292 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
5191203 TGCATTAGAA
*
5191213 CCACACGGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
1 CCACACAGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
* * * *
5191255 CCACACAGGCAAGGACATGGGCGTGTGTCCAGGCCGTG
1 CCACACAGGCAAGGACATGGACATGTGCCCAAGCCGTG
5191293 CAACAGACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (42 bp):
CCACACAGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
Found at i:5191307 original size:104 final size:104
Alignment explanation
Indices: 5191121--5191387 Score: 313
Period size: 104 Copynumber: 2.6 Consensus size: 104
5191111 ACATGGTCAG
* * * * * * *
5191121 GGACATGGGCATGTGCCTAGGCCGTGTGAGCCACACGGGCAAGGACATGGACGTGTTTCCAGGCT
1 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACAGGCAAGGACATGGGCGTGTGTCCAGGCC
* * * *
5191186 GTGTAACTCACTATTTATGCA-TTAGAACCACACGGGCAA
66 GTGCAACACACTATTTATG-ATTTAAAACCACACGAGCAA
5191225 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACAGGCAAGGACATGGGCGTGTGTCCAGGCC
1 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACAGGCAAGGACATGGGCGTGTGTCCAGGCC
* * * *
5191290 GTGCAACAGACTGTTTATGATTTAAAACCATATGAGCAA
66 GTGCAACACACTATTTATGATTTAAAACCACACGAGCAA
* * ** * *
5191329 TGACATGGACGTGTGCCC-AGGTGATGTGAGCTACACAGGCAAGGACATGGGTGTGTGTC
1 GGACATGGACATGTGCCCAAGCCG-TGTGAGCCACACAGGCAAGGACATGGGCGTGTGTC
5191388 TAGATCGTAT
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
103 4 0.03
104 136 0.97
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (104 bp):
GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACAGGCAAGGACATGGGCGTGTGTCCAGGCC
GTGCAACACACTATTTATGATTTAAAACCACACGAGCAA
Found at i:5192202 original size:25 final size:25
Alignment explanation
Indices: 5192174--5192221 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5192164 GCATTATTGC
*
5192174 TCTACTCTGTTCCA-TTCTGTTCTGT
1 TCTACTCTATT-CAGTTCTGTTCTGT
5192199 TCTACTCTATTCAGTTCTGTTCT
1 TCTACTCTATTCAGTTCTGTTCT
5192222 ATTTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.52
Consensus pattern (25 bp):
TCTACTCTATTCAGTTCTGTTCTGT
Found at i:5195056 original size:19 final size:19
Alignment explanation
Indices: 5195032--5195106 Score: 129
Period size: 19 Copynumber: 4.1 Consensus size: 19
5195022 ATAATCTTCA
5195032 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195051 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195070 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195087 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195105 AT
1 AT
5195107 TGTAGACACT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.30
18 13 0.24
19 25 0.46
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5195309 original size:262 final size:261
Alignment explanation
Indices: 5194835--5195626 Score: 1462
Period size: 262 Copynumber: 3.0 Consensus size: 261
5194825 ACAATTGATT
* *
5194835 TCTTAAATAGTTGTAGATACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAAT
1 TCTTAGATA-TTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAAT
*
5194900 AAACCCAAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATAAGATTTGGCCCGATCGGAA
65 AAACCCAAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAA
*
5194965 TGGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCGTATGGAAATATAATCTT
130 TGGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTT
5195030 CAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGC
195 CAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGC
5195095 AA
260 AA
*
5195097 TCTTAGATATTGTAGACACTCAATTTTACCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATA
1 TCTTAGATATTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATA
*
5195162 AACCCAAAAAAAAACGAAGTCCAAGTTCAATCCAGAACTACAAATATGATTTGGCCCGATCGGAA
66 AACCC-AAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAA
5195227 TGGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTT
130 TGGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTT
5195292 CAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGC
195 CAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGC
5195357 AA
260 AA
5195359 TCTTAGATATTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATA
1 TCTTAGATATTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATA
5195424 AACCCAAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAAT
66 AACCCAAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAAT
*
5195489 GACCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTC
131 GGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTC
*
5195554 AATGATATGCAATCTTAGATATGATA--CAATCTTAGATATGATTGCAATCTTAGATATGATATG
196 AATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGA-TACAATCTTAGATATGAT-TG
5195617 CAA
259 CAA
5195620 TCTTAGA
1 TCTTAGA
5195627 AGATATGATT
Statistics
Matches: 517, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
259 15 0.03
260 17 0.03
261 220 0.43
262 265 0.51
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (261 bp):
TCTTAGATATTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATA
AACCCAAAAAAAACGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAAT
GGCCCATTACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTC
AATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCA
A
Found at i:5195318 original size:19 final size:19
Alignment explanation
Indices: 5195294--5195368 Score: 129
Period size: 19 Copynumber: 4.1 Consensus size: 19
5195284 ATAATCTTCA
5195294 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195313 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195332 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195349 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195367 AT
1 AT
5195369 TGTAGACACT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.30
18 13 0.24
19 25 0.46
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5195576 original size:14 final size:15
Alignment explanation
Indices: 5195557--5195612 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
5195547 AATCTTCAAT
5195557 GATATG-CAATCTTA
1 GATATGACAATCTTA
5195571 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
5195588 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
5195606 GATATGA
1 GATATGA
5195613 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:5195601 original size:35 final size:37
Alignment explanation
Indices: 5195555--5195633 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
5195545 ATAATCTTCA
5195555 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
5195591 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
5195627 A-GATATG
1 ATGATATG
5195634 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:5195633 original size:17 final size:19
Alignment explanation
Indices: 5195555--5195626 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
5195545 ATAATCTTCA
5195555 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195574 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195591 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5195609 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5195627 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5195652 original size:22 final size:22
Alignment explanation
Indices: 5195555--5195649 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
5195545 ATAATCTTCA
5195555 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5195574 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5195591 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5195609 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5195631 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5195650 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5195659 original size:22 final size:22
Alignment explanation
Indices: 5195618--5195663 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
5195608 TATGATATGC
*
5195618 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
5195641 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
5195662 AA
1 AA
5195664 AAACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:5195662 original size:21 final size:23
Alignment explanation
Indices: 5195605--5195663 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
5195595 TTGCAATCTT
* *
5195605 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
5195627 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
5195649 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
5195664 AAACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:5195941 original size:18 final size:17
Alignment explanation
Indices: 5195918--5195951 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5195908 TTTCCCTGAT
*
5195918 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
5195936 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
5195952 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:5198469 original size:26 final size:26
Alignment explanation
Indices: 5198433--5198542 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
5198423 TGATACAAAT
5198433 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
5198459 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5198485 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5198511 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5198537 TGATAA
1 TGATAA
5198543 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5200264 original size:27 final size:26
Alignment explanation
Indices: 5200160--5200274 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
5200150 TGGAGGAAGC
* * *
5200160 GTTCTGGTGGCTATTCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
**
5200187 AATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
5200214 GTTCTAGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
5200241 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
5200268 GTTCTGG
1 GTTCTGG
5200275 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:5203046 original size:14 final size:14
Alignment explanation
Indices: 5203027--5203058 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5203017 AGGTCATTTA
5203027 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
5203041 GCCCAACCAAACTG
1 GCCCAACCAAACGG
5203055 GCCC
1 GCCC
5203059 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:5208170 original size:14 final size:14
Alignment explanation
Indices: 5208151--5208182 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5208141 AGGTCATTTA
5208151 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
5208165 GCCCAACCAAACTG
1 GCCCAACCAAACGG
5208179 GCCC
1 GCCC
5208183 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:5223654 original size:86 final size:86
Alignment explanation
Indices: 5223526--5223697 Score: 251
Period size: 86 Copynumber: 2.0 Consensus size: 86
5223516 ATGAAAAATT
*
5223526 GAAAGGGTAGAAAAATAGAAAGAGAAAATATAAATTTTCTTTCCATATGTGTGCTTGGTAGGAAA
1 GAAAGGGTAGAAAAATAGAAAGAGAAAATATAAATTTTCTTTCCATATGTGTGCTTAGTAGGAAA
* **
5223591 GACGGAAAAATTGAAAGAAAA
66 GACGAAAAAATCAAAAGAAAA
5223612 GAAAGGG-AGAAAAATATG-AAGATGGAAAATATAAA-TTTCTTTCCATATGTGTGCTTAGTAGG
1 GAAAGGGTAGAAAAATA-GAAAGA--GAAAATATAAATTTTCTTTCCATATGTGTGCTTAGTAGG
*
5223674 AAAGATGAAAAAATCAAAAGAAAA
63 AAAGACGAAAAAATCAAAAGAAAA
5223698 AATATTTTCT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
85 13 0.17
86 54 0.69
87 11 0.14
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.23
Consensus pattern (86 bp):
GAAAGGGTAGAAAAATAGAAAGAGAAAATATAAATTTTCTTTCCATATGTGTGCTTAGTAGGAAA
GACGAAAAAATCAAAAGAAAA
Found at i:5224139 original size:29 final size:29
Alignment explanation
Indices: 5224076--5224156 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
5224066 TTGTAAATGG
* *
5224076 TTTTTATTAATTTTAAAATTTTTGAACTT
1 TTTTTAATAATTTTAAAATTTTTGAAATT
* * *
5224105 TATTTAATATTTTTATAATTTTT-AATATT
1 TTTTTAATAATTTTAAAATTTTTGAA-ATT
* *
5224134 TTTTTACAAAATTATAAAATTTT
1 TTTTTA-ATAATTTTAAAATTTT
5224157 AAAAAATTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 2 0.05
29 26 0.65
30 12 0.30
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTTAATAATTTTAAAATTTTTGAAATT
Found at i:5224713 original size:162 final size:164
Alignment explanation
Indices: 5224408--5224715 Score: 469
Period size: 163 Copynumber: 1.9 Consensus size: 164
5224398 GTTGTTACGG
* * * *
5224408 TCAACATTAGTCAAAGGGCCTATTTGGCCAATTTTGTTAGTTTAGTGACTCAATTGGGTGCAAAA
1 TCAACATTAGTCAAAGGGCCTATTTGACCAATTTTGTTAGTTCAGGGACTCAATTAGGTGCAAAA
* * * *
5224473 AGTTCGCAGGGGTTTAATTAATTTTTTTGAAAAAGTTTGAGGACCAAAAATACCATTAAGCCCTT
66 AGTACACAGGCGCTTAATTAATTTTTTTGAAAAAGTTTGAGGACCAAAAATACCATTAAGCCCTT
5224538 CTTTAACTATTGATATATCCTTTTCTATGTATCA
131 CTTTAACTATTGATATATCCTTTTCTATGTATCA
*
5224572 TCAACATTAGTCAAAGGGCCTATTTGACCAA-TTTGTTAGTTCAGGGGCTCAATTAGGTGCAAAA
1 TCAACATTAGTCAAAGGGCCTATTTGACCAATTTTGTTAGTTCAGGGACTCAATTAGGTGCAAAA
* * * *
5224636 GGTACACAGGCGCTTAATTGATTTTTTT-AAAAATGTTTGATGA-GAAAAATACCATTAAGCCCT
66 AGTACACAGGCGCTTAATTAATTTTTTTGAAAAA-GTTTGAGGACCAAAAATACCATTAAGCCCT
5224699 TCTTTAACTATTGATAT
130 TCTTTAACTATTGATAT
5224716 GTCTTTTTTT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
162 41 0.32
163 59 0.45
164 30 0.23
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (164 bp):
TCAACATTAGTCAAAGGGCCTATTTGACCAATTTTGTTAGTTCAGGGACTCAATTAGGTGCAAAA
AGTACACAGGCGCTTAATTAATTTTTTTGAAAAAGTTTGAGGACCAAAAATACCATTAAGCCCTT
CTTTAACTATTGATATATCCTTTTCTATGTATCA
Found at i:5225835 original size:34 final size:34
Alignment explanation
Indices: 5225771--5225834 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
5225761 AATCTGAATA
5225771 TGTATCATTAACATTATCGAGATCATTTTTTATC
1 TGTATCATTAACATTATCGAGATCATTTTTTATC
*
5225805 TGTATCATTAATATTATC-AGGAT-ATTTTTT
1 TGTATCATTAACATTATCGA-GATCATTTTTT
5225835 TTATGCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (34 bp):
TGTATCATTAACATTATCGAGATCATTTTTTATC
Done.