Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 291 of 345
Found at i:87329370 original size:11 final size:12
Alignment explanation
Indices: 87329354--87329383 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
87329344 ATGTGCTAAT
87329354 TTGTTTGA-TGG
1 TTGTTTGATTGG
87329365 TTGTTTGATTGG
1 TTGTTTGATTGG
87329377 TTGTTTG
1 TTGTTTG
87329384 TTATACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.60
Consensus pattern (12 bp):
TTGTTTGATTGG
Found at i:87347775 original size:43 final size:43
Alignment explanation
Indices: 87347745--87347829 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
87347735 AAATCTATTA
*
87347745 ACAATGCCAAAGTCCCAGACATGGTATTACACGTAATCACAAT
1 ACAATGCCAAAGTCCCAGACATGGTATTACATGTAATCACAAT
* * *
87347788 ACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAA
1 ACAATGCCAAAGTCCCAGACATGGTATTACATGTAATCACAA
87347830 CTCGATAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (43 bp):
ACAATGCCAAAGTCCCAGACATGGTATTACATGTAATCACAAT
Found at i:87353305 original size:29 final size:28
Alignment explanation
Indices: 87353217--87353319 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
87353207 TACTCAATCA
** *
87353217 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-ACATTCAAGCT
* * * *
87353246 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
87353275 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
* *
87353304 CGCATACTCAGTGCCA
1 CGCACACTTAGTGCCA
87353320 ATCTCGTCCC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:87365399 original size:39 final size:39
Alignment explanation
Indices: 87365280--87365463 Score: 242
Period size: 39 Copynumber: 4.7 Consensus size: 39
87365270 CTCGTTCAAA
* * ** * *
87365280 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* * * * *
87365320 GGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
*
87365360 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
87365399 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
87365438 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCA
87365464 CTCGAACATT
Statistics
Matches: 126, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:87372994 original size:2 final size:2
Alignment explanation
Indices: 87372989--87373017 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87372979 TAAACAAAAA
87372989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87373018 AAATATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87377335 original size:43 final size:42
Alignment explanation
Indices: 87377273--87377439 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
87377263 GATTACCGAG
* *
87377273 ATGTGATTACATGTAAGACCATGTTTGGGATATTGACATTGA-
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTG-CATCGAT
* * * *
87377315 ATTGTGATTACGTGTAAGACCATGTTTGGGACATTCGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGATATT-GCATCGAT
* * * *
87377359 ATATGATTTCGTGTAAGACCATGTCCGGGATATTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATT-GCATCGAT
* * *
87377402 ATGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGCAT
87377440 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 5 0.05
43 97 0.93
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGCATCGAT
Found at i:87379884 original size:40 final size:40
Alignment explanation
Indices: 87379652--87379877 Score: 316
Period size: 40 Copynumber: 5.7 Consensus size: 40
87379642 TCGAATGATG
* * * *
87379652 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
87379692 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87379732 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
87379772 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87379812 TCCGGACTAAGATCCGAAGTCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
87379853 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
87379878 AACGAGTAGC
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87388509 original size:40 final size:40
Alignment explanation
Indices: 87388277--87388502 Score: 316
Period size: 40 Copynumber: 5.7 Consensus size: 40
87388267 TTCTAAGATG
* * * *
87388277 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
87388317 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87388357 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
87388397 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87388437 TCCGGACTAAGATCCGAAGTCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
87388478 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
87388503 AACGAGTAGC
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87394587 original size:43 final size:42
Alignment explanation
Indices: 87394525--87394691 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
87394515 GATTACCGAG
* *
87394525 ATGTGATTACATGTAAGACCATGTTTGGGATATTGACATTGA-
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTG-CATCGAT
* * * *
87394567 ATTGTGATTACGTGTAAGACCATGTTTGGGACATTCGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGATATT-GCATCGAT
* * * *
87394611 ATATGATTTCGTGTAAGACCATGTCCGGGATATTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATT-GCATCGAT
* * *
87394654 ATGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGCAT
87394692 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 5 0.05
43 97 0.93
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGCATCGAT
Found at i:87396963 original size:40 final size:40
Alignment explanation
Indices: 87396906--87397129 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
87396896 TCGAATGATG
* * * *
87396906 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
87396946 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87396986 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
87397026 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
87397066 TCCGGACTAAGATCCGAAGTCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
*
87397107 -CCGG-CTATG-TCCGAAGGCATTTG
1 TCCGGACTAAGATCCGAAGGCATTTG
87397130 AACGAGTAGC
Statistics
Matches: 172, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 13 0.08
39 4 0.02
40 145 0.84
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87411992 original size:16 final size:16
Alignment explanation
Indices: 87411971--87412004 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
87411961 AAAAGAAAGA
87411971 TGGTACGATGAGAATG
1 TGGTACGATGAGAATG
87411987 TGGTACGATGAGAATG
1 TGGTACGATGAGAATG
87412003 TG
1 TG
87412005 TATTAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.26
Consensus pattern (16 bp):
TGGTACGATGAGAATG
Found at i:87415535 original size:18 final size:19
Alignment explanation
Indices: 87415512--87415552 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
87415502 TGAGCTTGGG
87415512 TTTTTAATGATTTCTA-GT
1 TTTTTAATGATTTCTATGT
87415530 TTTTTAATGATTTCTATGT
1 TTTTTAATGATTTCTATGT
87415549 TTTT
1 TTTT
87415553 GTGATAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (19 bp):
TTTTTAATGATTTCTATGT
Found at i:87417705 original size:29 final size:29
Alignment explanation
Indices: 87417554--87417684 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
87417544 GTGACGAGAT
87417554 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87417583 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
87417612 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
87417641 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87417670 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
87417685 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:87417731 original size:87 final size:87
Alignment explanation
Indices: 87417554--87417742 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
87417544 GTGACGAGAT
* *
87417554 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
87417619 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
87417641 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
87417705 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
87417728 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
87417743 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:87425467 original size:57 final size:58
Alignment explanation
Indices: 87425395--87425524 Score: 235
Period size: 57 Copynumber: 2.3 Consensus size: 58
87425385 GTGACGAGAT
*
87425395 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
*
87425453 TGGCACT-AGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
87425510 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
87425525 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
57 55 0.80
58 14 0.20
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:87425545 original size:29 final size:29
Alignment explanation
Indices: 87425395--87425524 Score: 235
Period size: 29 Copynumber: 4.5 Consensus size: 29
87425385 GTGACGAGAT
87425395 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87425424 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
87425453 TGGCACT-AGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
87425481 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87425510 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
87425525 GAGCTCGAAG
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
28 27 0.28
29 70 0.72
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:87431018 original size:38 final size:38
Alignment explanation
Indices: 87430967--87431240 Score: 444
Period size: 38 Copynumber: 7.2 Consensus size: 38
87430957 TATTCGATGG
87430967 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
*
87431005 ATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
* *
87431043 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
*
87431081 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
87431119 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
* *
87431157 ATATCCGGGTTAAATCCCACAGGCTTCGTGCT-GTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
* *
87431194 ATATCCGGGATAAATCCCGCAGGCCT-AGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATT
*
87431232 ATATTCGGG
1 ATATCCGGG
87431241 CCTTCGTGCC
Statistics
Matches: 221, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
37 32 0.14
38 189 0.86
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
Found at i:87431310 original size:43 final size:43
Alignment explanation
Indices: 87431233--87431314 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
87431223 GCTGGTATTA
* **
87431233 TATTCGGGCCTTCGTGCCTAGTAGCCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGCCTTAATGCCGGTGATGTG
*
87431276 TATTCGGGCCTTCGTGCCTAGCAG-GTGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGCCT-TAATGCCGGTGA
87431315 AATGATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGCCTTAATGCCGGTGATGTG
Found at i:87436750 original size:38 final size:38
Alignment explanation
Indices: 87436699--87436859 Score: 223
Period size: 38 Copynumber: 4.2 Consensus size: 38
87436689 TATTCGATGG
* * *
87436699 ATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
87436737 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
87436775 ATATCCGGGTTAAATCCCGCAGGCTTCGAGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
** * * *
87436813 ATATCCAAGATAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
87436851 ATATTCGGG
1 ATATCCGGG
87436860 CCTTCGTGCC
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 108 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:87440610 original size:3 final size:3
Alignment explanation
Indices: 87440604--87440644 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
87440594 CTATATTTGA
87440604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87440645 ACCTATTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87458999 original size:23 final size:23
Alignment explanation
Indices: 87458972--87459017 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
87458962 ATGCAATATT
87458972 AGATAAGA-TATGTAAATCTTAGA
1 AGATAAGATTATGT-AATCTTAGA
* *
87458995 AGATATGATTTTGTAATCTTAGA
1 AGATAAGATTATGTAATCTTAGA
87459018 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (23 bp):
AGATAAGATTATGTAATCTTAGA
Found at i:87459030 original size:21 final size:23
Alignment explanation
Indices: 87458986--87459031 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
87458976 AAGATATGTA
*
87458986 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
87459009 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
87459030 AA
1 AA
87459032 ATATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:87462081 original size:40 final size:39
Alignment explanation
Indices: 87461916--87462099 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
87461906 GAAATTGATG
* * *
87461916 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
87461956 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
87461996 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
87462036 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
87462075 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
87462100 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:87462124 original size:80 final size:81
Alignment explanation
Indices: 87461956--87462144 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
87461946 GCTGGAAATT
* * * *
87461956 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
87462021 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
87462037 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
87462100 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
87462116 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
87462145 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:87473698 original size:40 final size:40
Alignment explanation
Indices: 87473639--87473845 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
87473629 CAATTGAATG
* * * *
87473639 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
87473679 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
87473719 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
87473759 AAAT-CGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
87473798 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
87473838 ATATCCGG
1 ATATCCGG
87473846 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 36 0.26
40 100 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:87480139 original size:40 final size:40
Alignment explanation
Indices: 87480082--87480267 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
87480072 TCGAATGATG
* * * *
87480082 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
87480122 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
87480162 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
87480202 TCCGGACTAAGATCCAAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
87480243 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
87480268 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.91
41 11 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87480215 original size:80 final size:82
Alignment explanation
Indices: 87480082--87480267 Score: 265
Period size: 80 Copynumber: 2.3 Consensus size: 82
87480072 TCGAATGATG
* *
87480082 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATT
87480146 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * *
87480162 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCAAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCAT
*
87480225 TTGTGTGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
87480243 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87480268 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
79 1 0.01
80 82 0.87
81 11 0.12
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATT
TGTGCGAGTTACTATAA
Found at i:87491640 original size:41 final size:41
Alignment explanation
Indices: 87491583--87491664 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
87491573 GGTCCACCAG
87491583 TGTGAGGAGGTCCAAGCCGTGTTGATTTCGTACTTTTGCCT
1 TGTGAGGAGGTCCAAGCCGTGTTGATTTCGTACTTTTGCCT
*
87491624 TGTGAGGAGGTCCAAGCCGTGTTGATTTTGTACTTTTGCCT
1 TGTGAGGAGGTCCAAGCCGTGTTGATTTCGTACTTTTGCCT
87491665 ATTTTCTCCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.15, C:0.18, G:0.29, T:0.38
Consensus pattern (41 bp):
TGTGAGGAGGTCCAAGCCGTGTTGATTTCGTACTTTTGCCT
Found at i:87495154 original size:20 final size:20
Alignment explanation
Indices: 87495131--87495181 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
87495121 TCTCTCAACA
87495131 AAAATTTCAAAATAATTTTT
1 AAAATTTCAAAATAATTTTT
** *
87495151 AAAAAATCAATATAATTTTT
1 AAAATTTCAAAATAATTTTT
*
87495171 AAAATTCCAAA
1 AAAATTTCAAA
87495182 TATTTATAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTTCAAAATAATTTTT
Found at i:87495174 original size:18 final size:19
Alignment explanation
Indices: 87495137--87495194 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 19
87495127 AACAAAAATT
87495137 TCAAAATAATTTTTAAAAAA
1 TCAAAATAATTTTT-AAAAA
* *
87495157 TCAATATAATTTTTAAAAT
1 TCAAAATAATTTTTAAAAA
* *
87495176 TCCAAAT-ATTTATAAAAA
1 TCAAAATAATTTTTAAAAA
87495194 T
1 T
87495195 TCCAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 10 0.31
19 9 0.28
20 13 0.41
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TCAAAATAATTTTTAAAAA
Found at i:87495205 original size:18 final size:19
Alignment explanation
Indices: 87495171--87495207 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
87495161 TATAATTTTT
87495171 AAAATTCCAAATATTTATA
1 AAAATTCCAAATATTTATA
87495190 AAAATTCCAAAT-TTTATA
1 AAAATTCCAAATATTTATA
87495208 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCCAAATATTTATA
Found at i:87495284 original size:38 final size:39
Alignment explanation
Indices: 87495212--87495289 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
87495202 TTTATATTTT
87495212 TAAAAAAATTATAAAATTTTTAAAAAATTCTAAAAAAATA
1 TAAAAAAATTATAAAA-TTTTAAAAAATTCTAAAAAAATA
* * *
87495252 TAAAGAAATT-TAAAA-TTTAAAAATTTTCTAAAACAATA
1 TAAAAAAATTATAAAATTTTAAAAA-ATTCTAAAAAAATA
87495290 ATTTTGAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 8 0.24
38 12 0.35
39 5 0.15
40 9 0.26
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (39 bp):
TAAAAAAATTATAAAATTTTAAAAAATTCTAAAAAAATA
Found at i:87496971 original size:12 final size:14
Alignment explanation
Indices: 87496944--87496976 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
87496934 AGTTAAAGTA
87496944 TAGGTTTAATTTTT
1 TAGGTTTAATTTTT
87496958 TAGGTTT-A-TTTT
1 TAGGTTTAATTTTT
87496970 TAGGTTT
1 TAGGTTT
87496977 TTGGGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (14 bp):
TAGGTTTAATTTTT
Found at i:87497187 original size:29 final size:29
Alignment explanation
Indices: 87497141--87497197 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
87497131 GTTCCCAGGT
87497141 AGAGAAACAAGGACAGGTGAACAAAAGGA
1 AGAGAAACAAGGACAGGTGAACAAAAGGA
*
87497170 AGAGAAACAAGGATAGGTGAACAAAAGG
1 AGAGAAACAAGGACAGGTGAACAAAAGG
87497198 GAGATGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.09, G:0.32, T:0.05
Consensus pattern (29 bp):
AGAGAAACAAGGACAGGTGAACAAAAGGA
Found at i:87497631 original size:2 final size:2
Alignment explanation
Indices: 87497624--87497663 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
87497614 GACTTTCGAT
87497624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87497664 GCATGTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87498702 original size:17 final size:17
Alignment explanation
Indices: 87498680--87498716 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
87498670 CTTCTTTGAT
87498680 GTCTATGAAGTACAAGG
1 GTCTATGAAGTACAAGG
*
87498697 GTCTATGAAGTATAAGG
1 GTCTATGAAGTACAAGG
87498714 GTC
1 GTC
87498717 AAGAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (17 bp):
GTCTATGAAGTACAAGG
Found at i:87502253 original size:20 final size:19
Alignment explanation
Indices: 87502217--87502254 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
87502207 ATTTTTACTA
*
87502217 TAAACATTATTTATATATG
1 TAAAAATTATTTATATATG
87502236 TAAAAATTATTATATATAT
1 TAAAAATTATT-TATATAT
87502255 TATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAAATTATTTATATATG
Found at i:87502258 original size:12 final size:12
Alignment explanation
Indices: 87502241--87502328 Score: 72
Period size: 12 Copynumber: 7.0 Consensus size: 12
87502231 ATATGTAAAA
87502241 ATTATTATATAT
1 ATTATTATATAT
* *
87502253 ATTATTTTTATTT
1 ATTA-TTATATAT
87502266 ATGTATTATTTATCAT
1 AT-TATTA--TAT-AT
87502282 ATTATT-TATAT
1 ATTATTATATAT
*
87502293 TTTATTATATAT
1 ATTATTATATAT
*
87502305 TTTATT-TATAT
1 ATTATTATATAT
87502316 ATTTATTATATAT
1 A-TTATTATATAT
87502329 TATATCATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
11 12 0.19
12 23 0.37
13 15 0.24
14 2 0.03
15 7 0.11
16 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:87502272 original size:26 final size:25
Alignment explanation
Indices: 87502241--87502413 Score: 112
Period size: 26 Copynumber: 6.7 Consensus size: 25
87502231 ATATGTAAAA
87502241 ATTATTATATATATTATTTTTATTT
1 ATTATTATATATATTATTTTTATTT
*
87502266 ATGTATTATTTATCA-TATTATTTATATT
1 AT-TATTATATAT-ATTATT-TTTAT-TT
*
87502294 -TTATTATATATTTTATTTATATATTT
1 ATTATTATATATATTATTT-T-TATTT
*
87502320 ATTA-TATATTATATCATTTTGCTATGTAT
1 ATTATTATA-TATATTATTTT--TAT-T-T
*
87502349 ATTATTCAT-TATATTATTTTTGTTCT
1 ATTATT-ATATATATTATTTTTATT-T
87502375 ATTA-TATATTATATTATTTTGT-TTT
1 ATTATTATA-TATATTATTTT-TATTT
87502400 -TTATTAT-T-TATTAT
1 ATTATTATATATATTAT
87502414 GTATAATTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 39
0.72 0.05 0.23
Matches are distributed among these distances:
22 6 0.05
23 1 0.01
24 5 0.04
25 8 0.07
26 53 0.44
27 27 0.22
28 3 0.02
29 15 0.12
30 1 0.01
31 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (25 bp):
ATTATTATATATATTATTTTTATTT
Found at i:87502323 original size:50 final size:52
Alignment explanation
Indices: 87502242--87502338 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 52
87502232 TATGTAAAAA
* * * *
87502242 TTATTATATATATTATTTTTATTTATGTATTATTTATCATATTATTTATATT
1 TTATTATATATATTATATTTATATATGTATTATATATCATATCATTTATATT
* *
87502294 TTATTATATAT-TT-TATTTATATATTTATTATATATTATATCATTT
1 TTATTATATATATTATATTTATATATGTATTATATATCATATCATTT
87502339 TGCTATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 26 0.67
51 2 0.05
52 11 0.28
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (52 bp):
TTATTATATATATTATATTTATATATGTATTATATATCATATCATTTATATT
Found at i:87502391 original size:12 final size:12
Alignment explanation
Indices: 87502241--87502333 Score: 76
Period size: 11 Copynumber: 8.2 Consensus size: 12
87502231 ATATGTAAAA
87502241 ATTAT-TATATAT
1 ATTATATAT-TAT
*
87502253 ATTAT-TTTTAT
1 ATTATATATTAT
*
87502264 -TTATGTATTAT
1 ATTATATATTAT
87502275 -TTATCATATTAT
1 ATTAT-ATATTAT
87502287 -TTATAT-TT-T
1 ATTATATATTAT
*
87502296 ATTATATATTTT
1 ATTATATATTAT
87502308 ATTTATATATT-T
1 A-TTATATATTAT
87502320 ATTATATATTAT
1 ATTATATATTAT
87502332 AT
1 AT
87502334 CATTTTGCTA
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
9 1 0.01
10 12 0.17
11 25 0.35
12 24 0.34
13 9 0.13
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATATATTAT
Found at i:87502699 original size:14 final size:14
Alignment explanation
Indices: 87502658--87502699 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
87502648 TTTTTACCTC
87502658 ATTTATTTTTTATTGT
1 ATTTA-TTTTT-TTGT
*
87502674 ATTTAGTTTTTTGT
1 ATTTATTTTTTTGT
87502688 ATTTATTTTTTT
1 ATTTATTTTTTT
87502700 TTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 15 0.62
15 4 0.17
16 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (14 bp):
ATTTATTTTTTTGT
Found at i:87502699 original size:16 final size:16
Alignment explanation
Indices: 87502658--87502707 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
87502648 TTTTTACCTC
*
87502658 ATTTATTTTTTATTGT
1 ATTTATTTTTTTTTGT
*
87502674 ATTTA--GTTTTTTGT
1 ATTTATTTTTTTTTGT
*
87502688 ATTTATTTTTTTTTAT
1 ATTTATTTTTTTTTGT
87502704 ATTT
1 ATTT
87502708 TATATGTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.43
16 16 0.57
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
ATTTATTTTTTTTTGT
Found at i:87503642 original size:19 final size:19
Alignment explanation
Indices: 87503618--87503657 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
87503608 AGCTCCCATG
87503618 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
* *
87503637 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
87503656 TA
1 TA
87503658 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:87504921 original size:14 final size:14
Alignment explanation
Indices: 87504902--87504944 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
87504892 AACCGCCCAA
*
87504902 TTTGTTCATACCAT
1 TTTGTTCCTACCAT
*
87504916 TTTGTTCCTACCCT
1 TTTGTTCCTACCAT
*
87504930 TTCGTTCCTACCAT
1 TTTGTTCCTACCAT
87504944 T
1 T
87504945 CCATTCGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.14, C:0.30, G:0.07, T:0.49
Consensus pattern (14 bp):
TTTGTTCCTACCAT
Found at i:87516734 original size:45 final size:45
Alignment explanation
Indices: 87516160--87516739 Score: 285
Period size: 45 Copynumber: 12.9 Consensus size: 45
87516150 GTAGATCACT
* * * * * *
87516160 GATAGCAGATTTGGCATCTCTATATT-GACGGGGAACAAATCGAG
1 GATAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * *
87516204 GA-AGCAGATTTGGTGTTTCTGTATTAGACGGGGAGCAGATTGAA
1 GATAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * * * * * * *
87516248 GATAGTAGATCTGACAT-TCATGTGTT-TACATCGAAGCAGATTGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTAGACA-GGGAGCAGATCGAA
* *
87516293 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGGA
1 GATAG-CAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * * * * * * *
87516338 GATAGTAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATTGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTAGACA-GGGAGCAGATCGAA
* * * *
87516383 GATTA-CAAATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAA
1 GA-TAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * * * * * *
87516428 GATAGTAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTAGACA-GGGAGCAGATCGAA
* * * *
87516473 GCT-GACAGATTTGGTGTCTCTATATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * * * * *
87516518 GATAGTAGATCTGACAT-TCGTGTGTTTACATCA--AAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGT-ATTAGA-CAGGGAGCAGATCGAA
* *
87516563 GATAGCAGATTTGGCGTCTATGTATTAGACGGGGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * * * * * * *
87516608 GATAGTAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTAGACA-GGGAGCAGATCGAA
* * *
87516653 GAT-GACAGATTTAGTGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
* * *
87516698 GATAGCAGATTTGGCGTCTCTGTATTTGATAAGGAGCAGATC
1 GATAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATC
87516740 AAGGATATTA
Statistics
Matches: 384, Mismatches: 120, Indels: 63
0.68 0.21 0.11
Matches are distributed among these distances:
43 20 0.05
44 44 0.11
45 293 0.76
46 26 0.07
47 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (45 bp):
GATAGCAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA
Found at i:87516739 original size:90 final size:90
Alignment explanation
Indices: 87516208--87516707 Score: 813
Period size: 90 Copynumber: 5.6 Consensus size: 90
87516198 ATCGAGGAAG
* * * *
87516208 CAGATTTGGTGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
87516273 TTACATCGAAGCAGATTGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
87516298 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGGAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
87516363 TTACATCGAAGCAGATTGAAGATTA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
87516388 CAAATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
87516453 TTACATCGAAGCAGATCGAAGCTGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
87516478 CAGATTTGGTGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
87516543 TTACATCAAAGCAGATCGAAGAT-A
66 TTACATCGAAGCAGATCGAAGATGA
*
87516567 GCAGATTTGGCGTCTATGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTG
1 -CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTG
87516632 TTTACATCGAAGCAGATCGAAGATGA
65 TTTACATCGAAGCAGATCGAAGATGA
* * *
87516658 CAGATTTAGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGAT
87516708 TTGGCGTCTC
Statistics
Matches: 380, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
89 1 0.00
90 378 0.99
91 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:87518422 original size:147 final size:145
Alignment explanation
Indices: 87518145--87518529 Score: 384
Period size: 147 Copynumber: 2.6 Consensus size: 145
87518135 ATGCCGACCT
* * * * * *
87518145 TTAAAAAGGGTTGGGATAGACCTA-GT-TAAGACCAACCTTTGAAAAAGGTTGTGATAAATCTGT
1 TTAAAAA-GGTTGGGATAGACC-ACGTCTAA-AACAACCTATAAAAAAGGTTGGGATAGACCTGT
* * ** * * * * * *
87518208 CT-AAGACAACCTTAAAAAGGTCGATATAGTTCTTGTTTAAGGAAACTTTTAAAAACGGTTGGGA
63 CTAAAG-CAACCTTAAAAAGGTTG-GATAGACCATGTCTAAGGAAACCTTTAAAAAAGGTCGGAA
*
87518272 TAGAGC-CGTCTAATGCAACC
126 TAGA-CTCGTCTAAGGCAACC
* * *
87518292 TTAAAAAGGTTGGGATCGA-CATTGTCTAAAACAACCTATAATAAAATGTTGGGATAGACCTGTC
1 TTAAAAAGGTTGGGATAGACCA-CGTCTAAAACAACCTATAA-AAAAGGTTGGGATAGACCTGTC
* * * *
87518356 TAAGGCAATCTTAAACAGGTTAGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATA
64 TAAAGCAACCTTAAAAAGGTT-GGATAGACCATGTCTAAGGAAACCTTTAAAAAAGGTCGGAATA
87518421 GACTCGTCTAAGGCAACC
128 GACTCGTCTAAGGCAACC
*** * * *
87518439 TTAAAAAGGTTGGGATAGACCACGTCTAAGGTAACTTTTAAAAAAGGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGGGATAGACCACGTCTAAAACAACCTATAAAAAAGGTTGGGATAGACCTGTCTA
87518504 AAGCAACCTTAAAAAGGTTGGATAGA
66 AAGCAACCTTAAAAAGGTTGGATAGA
87518530 TATTATTTAA
Statistics
Matches: 195, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
144 1 0.01
145 8 0.04
146 61 0.31
147 120 0.62
148 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (145 bp):
TTAAAAAGGTTGGGATAGACCACGTCTAAAACAACCTATAAAAAAGGTTGGGATAGACCTGTCTA
AAGCAACCTTAAAAAGGTTGGATAGACCATGTCTAAGGAAACCTTTAAAAAAGGTCGGAATAGAC
TCGTCTAAGGCAACC
Found at i:87518466 original size:73 final size:73
Alignment explanation
Indices: 87518145--87518569 Score: 378
Period size: 73 Copynumber: 5.8 Consensus size: 73
87518135 ATGCCGACCT
* * * * *
87518145 TTAAAAAGGGTTGGGATAGACC-TAGT-TAAGACCAACCTTTGAAAAAGGTTGTGATAAATCTGT
1 TTAAAAA-GGTTGGGATAGACCAT-GTCTAAG-GCAACCTTTAAAAAAGGTTGGGATAGACCTGT
*
87518208 CTAAGACAACC
63 CTAAGGCAACC
* ** ** * * * * *
87518219 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGAAACTTTTAAAAACGGTTGGGATAGAGCC-GTCT
1 TTAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCTGTCT
*
87518283 AATGCAACC
65 AAGGCAACC
* ** * *
87518292 TTAAAAAGGTTGGGATCGA-CATTGTCTAAAACAACCTATAATAAAATGTTGGGATAGACCTGTC
1 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGGCAACCTTTAA-AAAAGGTTGGGATAGACCTGTC
*
87518356 TAAGGCAATC
64 TAAGGCAACC
* * * *
87518366 TTAAACAGGTTAGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGA-CTCGTCT
1 TTAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCT-GTCT
87518430 AAGGCAACC
65 AAGGCAACC
* * * *
87518439 TTAAAAAGGTTGGGATAGACCACGTCTAAGGTAACTTTTAAAAAAGGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
*
87518504 AAGCAACC
66 AGGCAACC
* * * * * *
87518512 TTAAAAAGGTT-GGATAGA-TATTATTTAAAGCAACCTATAAAAAAAGATTGGGATAGAC
1 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGGCAACCT-TTAAAAAAGGTTGGGATAGAC
87518570 ATGTATAATA
Statistics
Matches: 281, Mismatches: 59, Indels: 23
0.77 0.16 0.06
Matches are distributed among these distances:
71 1 0.00
72 19 0.07
73 187 0.67
74 72 0.26
75 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (73 bp):
TTAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AGGCAACC
Found at i:87518708 original size:6 final size:6
Alignment explanation
Indices: 87518676--87518719 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
87518666 TGCAACTAAA
*
87518676 AAAATTT AAAATTT AAAATAC AAAATT AAAATT AAAATT AAAAT
1 AAAA-TT AAAA-TT AAAAT-T AAAATT AAAATT AAAATT AAAAT
87518720 AAAGATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 18 0.53
7 16 0.47
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:87523595 original size:27 final size:26
Alignment explanation
Indices: 87523547--87523606 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
87523537 GCGAGGCTGC
*
87523547 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
87523574 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
87523600 TAGATAT
1 CAGATAT
87523607 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:87524409 original size:27 final size:27
Alignment explanation
Indices: 87524360--87524425 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
87524350 AGGGGCAAAA
*
87524360 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCCACAAGGGTATCT
* * * *
87524387 TGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATCT
*
87524414 TAGTAATTCTAC
1 TGGTAATTCTAC
87524426 AACTTATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGTAATTCTACCCCACAAGGGTATCT
Found at i:87534240 original size:27 final size:27
Alignment explanation
Indices: 87534188--87534246 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
87534178 CAGAAATAGT
* * *
87534188 ATCAGGTGGCCTTAGTCCATTAACAGA
1 ATCAGGTGGCCTAAGCCCAATAACAGA
87534215 ATCAGGTGGGCCTAAGCCCAAT-ACAGA
1 ATCAGGT-GGCCTAAGCCCAATAACAGA
87534242 ATCAG
1 ATCAG
87534247 TATTAGATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
ATCAGGTGGCCTAAGCCCAATAACAGA
Found at i:87538402 original size:11 final size:11
Alignment explanation
Indices: 87538386--87538445 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
87538376 TTATATATAC
87538386 TAATAAAATAA
1 TAATAAAATAA
87538397 TAATAAAATAA
1 TAATAAAATAA
* *
87538408 TAA-AATATCA
1 TAATAAAATAA
*
87538418 TAAAAAAATTAA
1 TAATAAAA-TAA
* *
87538430 -ATTAAAATAT
1 TAATAAAATAA
87538440 TAATAA
1 TAATAA
87538446 CTAATATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 10 0.26
11 26 0.68
12 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:87538430 original size:19 final size:19
Alignment explanation
Indices: 87538387--87538431 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
87538377 TATATATACT
*
87538387 AATAAAATAATAATAAAAT
1 AATAAAATAATAATAAAAA
*
87538406 AATAAAAT-ATCATAAAAA
1 AATAAAATAATAATAAAAA
*
87538424 AATTAAAT
1 AATAAAAT
87538432 TAAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAAATAATAATAAAAA
Found at i:87540491 original size:21 final size:20
Alignment explanation
Indices: 87540467--87540505 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
87540457 TGAATGGATT
87540467 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
87540488 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
87540506 ATCAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:87542886 original size:58 final size:58
Alignment explanation
Indices: 87542796--87542911 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
87542786 TGGCATTTGC
87542796 GTGAATATGCATTATTTTTAATGGTAAATTAGTAATAAGACAAATAAAGGTTAATAAA
1 GTGAATATGCATTATTTTTAATGGTAAATTAGTAATAAGACAAATAAAGGTTAATAAA
*
87542854 GTGAATATGCATTATTTTTAATGGTAAATTAGTAATAAGGCAAATAAAGGTTAATAAA
1 GTGAATATGCATTATTTTTAATGGTAAATTAGTAATAAGACAAATAAAGGTTAATAAA
87542912 ATTAAAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.34
Consensus pattern (58 bp):
GTGAATATGCATTATTTTTAATGGTAAATTAGTAATAAGACAAATAAAGGTTAATAAA
Found at i:87543708 original size:21 final size:22
Alignment explanation
Indices: 87543673--87543723 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
87543663 TTGTTGGACC
*
87543673 ATGATTTGAAAATGATTCTACA
1 ATGATTTGAAAATGATTCGACA
*
87543695 ATGATTTG-AAATGATTCGACT
1 ATGATTTGAAAATGATTCGACA
87543716 ATGATTTG
1 ATGATTTG
87543724 GTATTGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (22 bp):
ATGATTTGAAAATGATTCGACA
Found at i:87543904 original size:48 final size:47
Alignment explanation
Indices: 87543835--87543965 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 47
87543825 GTGCGAGTTA
* * ** * *
87543835 TACCTTGATTTGTCTACGGGCCATGGTATAGGTATTTTGGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCCGAGAGAAAT
* * *
87543883 TACCTTAATTTGGCTAGGGGCCATGGTATAGGTACTCCGAGATAAAT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAAT
* *
87543930 TACCTTGATTTGGTTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
87543966 TATCGACTGA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 40 0.56
48 31 0.44
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAAT
Found at i:87546698 original size:42 final size:42
Alignment explanation
Indices: 87546563--87546701 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
87546553 GTATGTGTTA
*
87546563 TCATGTAAGACCATATCTGAGATATGGCA-CTGATATGAGATT
1 TCATGTAAGACCATATCTAAGATATGGCATC-GATATGAGATT
* ** * * *
87546605 TCGTGTAAGACCACGTC-AAGGACATGTCATCGAAATGAGATT
1 TCATGTAAGACCATATCTAA-GATATGGCATCGATATGAGATT
* * * * *
87546647 TCGTATAAGACCATATCTTAGATATGGCATCGATGTGAGATC
1 TCATGTAAGACCATATCTAAGATATGGCATCGATATGAGATT
*
87546689 CCATGTAAGACCA
1 TCATGTAAGACCA
87546702 CGTCTGGGAC
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 72 0.96
43 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
TCATGTAAGACCATATCTAAGATATGGCATCGATATGAGATT
Found at i:87549183 original size:21 final size:22
Alignment explanation
Indices: 87549143--87549183 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87549133 CCTCTGAGTT
*
87549143 TGGTTTTGACTATGTTTGGTTA
1 TGGTTTTAACTATGTTTGGTTA
*
87549165 TGGTTTTAACTGT-TTTGGT
1 TGGTTTTAACTATGTTTGGT
87549184 GATGATGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.12, C:0.05, G:0.27, T:0.56
Consensus pattern (22 bp):
TGGTTTTAACTATGTTTGGTTA
Found at i:87555035 original size:43 final size:43
Alignment explanation
Indices: 87554878--87555036 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
87554868 GATGTGTTCT
** *
87554878 CGTGTAAGACCACATCTGGGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGA-TTA
* * * * *
87554922 CGTGTAAGACCATGTCTAGGACATCGACATTG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * * *
87554964 CATTTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
**
87555007 CGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
87555037 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
42 27 0.30
43 37 0.41
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:87561640 original size:27 final size:27
Alignment explanation
Indices: 87561618--87561904 Score: 376
Period size: 27 Copynumber: 10.6 Consensus size: 27
87561608 TTAGTTTACC
*
87561618 AAATTACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87561645 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87561672 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
*
87561699 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87561726 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87561753 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87561780 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87561807 AAATTACCAAAATACCCCGGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87561834 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87561861 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTATA
*
87561888 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
87561905 TCGACCTGTA
Statistics
Matches: 228, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 228 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:87561683 original size:54 final size:54
Alignment explanation
Indices: 87561618--87561904 Score: 421
Period size: 54 Copynumber: 5.3 Consensus size: 54
87561608 TTAGTTTACC
* *
87561618 AAATTACCAAAATACCCCTAGTTTATAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
87561672 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
87561726 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * ** *
87561780 AAATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCCGGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
87561834 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
87561888 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
87561905 TCGACCTGTA
Statistics
Matches: 210, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 210 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:87561915 original size:81 final size:80
Alignment explanation
Indices: 87561618--87562042 Score: 356
Period size: 81 Copynumber: 5.2 Consensus size: 80
87561608 TTAGTTTACC
* * * * * *
87561618 AAATTACCAAAATACCCCT-AGTTTATAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCCTGA-TTTATAAAATTACCAAAATACCC-CGATTTGTAAAATTATCAA
*
87561682 AATACCCCTGGTTTGTA
64 AATACCCCTAGTTTGTA
* * *
87561699 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCGA-TTTGTAAAATTATC-AA
* * *
87561763 AATACCCTTTGTTTATA
64 AATACCCCTAGTTTGTA
* * * *
87561780 AAATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCCGGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCC-GATTTGTAAAATTATCAAA
87561845 ATACCCCTAGTTTGTA
65 ATACCCCTAGTTTGTA
* * * ** **
87561861 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCC-CGATTTGTAAAATTATCAAA
* * *
87561926 ATA-CTCTCGACTTGTA
65 ATACCCCTAG-TTTGTA
* ** * *** ** * *
87561942 AAATTACCAAAGTACCGTTGATTTATAGAATTA-CAGTTTTACCCTCGATTTACAAAATTACCGA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCA-AAATACCC-CGATTTGTAAAATTATCAA
**
87562006 AATACCCCT-GTAAGGTA
64 AATACCCCTAGT-TTGTA
*
87562023 AAATTACCAGAATACCCCTG
1 AAATTACCAAAATACCCCTG
87562043 TAGGGTAGAA
Statistics
Matches: 279, Mismatches: 55, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
80 6 0.02
81 268 0.96
82 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCGATTTGTAAAATTATCAAAA
TACCCCTAGTTTGTA
Found at i:87561918 original size:27 final size:27
Alignment explanation
Indices: 87561618--87562012 Score: 295
Period size: 27 Copynumber: 14.6 Consensus size: 27
87561608 TTAGTTTACC
* *
87561618 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
87561645 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
87561672 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
87561699 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
87561726 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
87561753 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
87561780 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
87561807 AAATTACCAAAATACCC-CGGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
87561834 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
87561861 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
87561888 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
87561915 AAATTATTGAAATACTCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
87561942 AAATTACCAAAGTACCGTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
87561969 GAATTA-CAGTTTTACCCTCGATTTACA
1 AAATTACCA-AAATACCCTCGATTTGTA
*
87561996 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
87562013 CTGTAAGGTA
Statistics
Matches: 296, Mismatches: 58, Indels: 28
0.77 0.15 0.07
Matches are distributed among these distances:
25 1 0.00
26 5 0.02
27 285 0.96
28 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:87562025 original size:27 final size:27
Alignment explanation
Indices: 87561997--87562216 Score: 295
Period size: 27 Copynumber: 8.3 Consensus size: 27
87561987 CGATTTACAA
* *
87561997 AATTACCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
87562024 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
87562051 AATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
87562077 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
87562104 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
87562131 AATTACCGAAATA-CCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
87562157 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
87562184 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
87562210 AATTACC
1 AATTACC
87562217 ATTTTGCCCC
Statistics
Matches: 171, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
26 66 0.39
27 104 0.61
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:87562091 original size:53 final size:53
Alignment explanation
Indices: 87561997--87562216 Score: 291
Period size: 53 Copynumber: 4.1 Consensus size: 53
87561987 CGATTTACAA
* *
87561997 AATTACCGAAATACCCCTGTAAGGTAAAATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGA-AATA-CCCTGTAGGGTAG
87562051 AATTACCGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCTGTAGGGTAG
* * *
87562104 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAG
** * * * * *
87562157 AATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAG
87562210 AATTACC
1 AATTACC
87562217 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
53 108 0.73
54 40 0.27
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (53 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAG
Found at i:87562117 original size:80 final size:80
Alignment explanation
Indices: 87561997--87562216 Score: 311
Period size: 80 Copynumber: 2.8 Consensus size: 80
87561987 CGATTTACAA
* *
87561997 AATTACCGAAATACCCCTGTAAGGTAAAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAA
*
87562062 TACCCTGTAGGGTAG
66 TACCCTATAGGGTAG
*
87562077 AATTACCGAAATACCCCTGTAGGGTAGAATTATC-GCAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAG-AATACCCCTGTAGGGTAGAATTACCGAA
87562141 ATACCCTATAGGGTAG
65 ATACCCTATAGGGTAG
** * * * *
87562157 AATTACTAAAATACCCCTGTAGGGTGGAATTACC-GAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAGA-ATACCCCTGTAGGGTAGAATTACC
87562217 ATTTTGCCCC
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 19 0.15
80 108 0.85
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCTATAGGGTAG
Found at i:87562917 original size:27 final size:25
Alignment explanation
Indices: 87562867--87562966 Score: 83
Period size: 27 Copynumber: 3.8 Consensus size: 25
87562857 TCTGTTAAGC
* * *
87562867 GGCTTTGCCACATTATCTATTTCTGCT
1 GGCTATGCCACAATATCT-GTTCTG-T
87562894 GGCTATGCCACAAATATCTGTTCTAGT
1 GGCTATGCCAC-AATATCTGTTCT-GT
*
87562921 GGCTCTGCCACAATATCTGTATCTGGT
1 GGCTATGCCACAATATCTGT-TCT-GT
* * *
87562948 GACTCTGTCACAATATCTG
1 GGCTATGCCACAATATCTG
87562967 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.14
27 47 0.75
28 7 0.11
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
GGCTATGCCACAATATCTGTTCTGT
Found at i:87563141 original size:6 final size:6
Alignment explanation
Indices: 87563126--87563222 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
87563116 ATTCTGTTAC
* * * *
87563126 CTGATA CTGATT CTGATT TTGATT CT-TTT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
87563175 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
87563223 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 61 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:87563149 original size:31 final size:31
Alignment explanation
Indices: 87563114--87563238 Score: 155
Period size: 31 Copynumber: 4.1 Consensus size: 31
87563104 TTCTAATTTT
*
87563114 TGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
*
87563145 TGATTCTTTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
87563176 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
87563207 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
87563237 TG
1 TG
87563239 TAATGGGTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
30 16 0.20
31 63 0.78
32 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:87574512 original size:44 final size:42
Alignment explanation
Indices: 87574443--87574562 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 42
87574433 TGTGATTTCA
** * * *
87574443 TGTAAGACCACATCTGGGACGTTGGCATTG-ATTTGAGATTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATTT-TG
*
87574487 TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTTG
* *
87574529 TGTAAGACCTTGTCTGGGACAGTGGCATCG-ATAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAT
87574563 TCAATTACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 4 0.06
42 29 0.44
43 5 0.08
44 25 0.38
45 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTTG
Found at i:87576993 original size:43 final size:42
Alignment explanation
Indices: 87576874--87577029 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 42
87576864 GTGTTCTCGA
* *
87576874 GTAAGACCATATCTGGGACGTTGGCATCGACT-TATGATTTCTGT
1 GTAAGACCATATCTGGGAAG-TGGCATCGA-TATTTGATTTC-GT
* *
87576918 GTAAGACCAT-GCTTGGGACA-TCAGCATC-ATATTTGATTTCGT
1 GTAAGACCATATC-TGGGA-AGT-GGCATCGATATTTGATTTCGT
* * *
87576960 GTAAGACCCTATCTGGGATAGTGGCATCGATATTTGATTACAT
1 GTAAGACCATATCTGGGA-AGTGGCATCGATATTTGATTTCGT
* *
87577003 GTAAGACCATGTCTGGGACGTTGGCAT
1 GTAAGACCATATCTGGGAAG-TGGCAT
87577030 GGTACAAGCT
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
42 24 0.26
43 47 0.52
44 20 0.22
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
GTAAGACCATATCTGGGAAGTGGCATCGATATTTGATTTCGT
Found at i:87589748 original size:19 final size:20
Alignment explanation
Indices: 87589703--87589746 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
87589693 AGTCGTGATT
87589703 GAGGGAAAAACAAAGTTTAC
1 GAGGGAAAAACAAAGTTTAC
87589723 GAGGGAAAAACAAAGTTTAC
1 GAGGGAAAAACAAAGTTTAC
87589743 GAGG
1 GAGG
87589747 AATAGGCTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.30, T:0.14
Consensus pattern (20 bp):
GAGGGAAAAACAAAGTTTAC
Found at i:87590130 original size:47 final size:45
Alignment explanation
Indices: 87590056--87590178 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
87590046 TGGTTGAGTT
* * *
87590056 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG-G-CAT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGA-ATG-AA-T-GCGACAC
* *
87590103 TCGAGCTCGTTGAGTTGAGTCCGAGTTCATTAATGAATGCGAACAC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGAATGAATGCG-ACAC
87590149 CCGAGCTCGTTGAGTTGAGTCCGAGTTCAT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCAT
87590179 TTATGGGCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 2 0.03
46 34 0.51
47 28 0.42
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGAATGAATGCGACAC
Found at i:87590676 original size:92 final size:92
Alignment explanation
Indices: 87590514--87590699 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
87590504 ATTGTAGGTT
87590514 TGACAAGCCGGATTGAGAATCGAGATAGGTCGAAGGCTCGTTCACACTATCCAAAGACCTAAATT
1 TGACAAGCCGGATTGAGAATCGAGATAGGTCGAAGGCTCGTTCACACTATCCAAAGACCTAAATT
87590579 GGTAAAATGGCTTGTATATTTTGAATG
66 GGTAAAATGGCTTGTATATTTTGAATG
* * *
87590606 TGACGAGCCGGCTTGAGAATCGGGATAGGTCGAAGGCTCGTTCACACTATCCAAAGACCTAAATT
1 TGACAAGCCGGATTGAGAATCGAGATAGGTCGAAGGCTCGTTCACACTATCCAAAGACCTAAATT
87590671 GGTAAAATGGCTTGTATATTTTGAATG
66 GGTAAAATGGCTTGTATATTTTGAATG
87590698 TG
1 TG
87590700 GCATGTATAG
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (92 bp):
TGACAAGCCGGATTGAGAATCGAGATAGGTCGAAGGCTCGTTCACACTATCCAAAGACCTAAATT
GGTAAAATGGCTTGTATATTTTGAATG
Found at i:87594203 original size:40 final size:40
Alignment explanation
Indices: 87594151--87594362 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
87594141 CATTTGAATG
* * *
87594151 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
87594191 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
87594231 ATATCCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * **
87594271 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
87594311 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
87594351 ATATCC-GGCTAA
1 ATATCCGGGCTAA
87594363 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 139 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:87603668 original size:25 final size:23
Alignment explanation
Indices: 87603632--87603689 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
87603622 TTTACCTTAC
87603632 TTTTA-TATTATACATTATAAGATTA
1 TTTTATTA-TATACATTAT--GATTA
* *
87603657 TTTTATTATATATATTATTATTA
1 TTTTATTATATACATTATGATTA
87603680 -TTTATTATAT
1 TTTTATTATAT
87603690 CTTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
25 14 0.47
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTATATACATTATGATTA
Found at i:87603670 original size:20 final size:22
Alignment explanation
Indices: 87603647--87603689 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87603637 TATTATACAT
87603647 TATAAGATTA-T-TTTATTATA
1 TATAAGATTATTATTTATTATA
**
87603667 TATATTATTATTATTTATTATA
1 TATAAGATTATTATTTATTATA
87603689 T
1 T
87603690 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATAAGATTATTATTTATTATA
Found at i:87603675 original size:3 final size:3
Alignment explanation
Indices: 87603653--87603748 Score: 53
Period size: 3 Copynumber: 32.7 Consensus size: 3
87603643 ACATTATAAG
*
87603653 ATT ATT -TT ATT A-T ATAT ATT ATT ATT ATTT ATT ATAT CTT ATT -TT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT ATT ATT
** * *
87603698 -TT CACAA ATT ATT ATT ATT ATT -TT A-C ATT ATT ATT TTT A-T ATT
1 ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
87603741 ATT ATT AT
1 ATT ATT AT
87603749 ATCTTACTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
2 13 0.18
3 50 0.69
4 9 0.12
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:87603686 original size:22 final size:22
Alignment explanation
Indices: 87603653--87603789 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 22
87603643 ACATTATAAG
87603653 ATTATTTTATTATATATATTATT
1 ATTA-TTTATTATATATATTATT
*
87603676 ATTATTTA-T-TATATCTTATT
1 ATTATTTATTATATATATTATT
* * *
87603696 -TT-TTCA-CAAAT-TATTATT
1 ATTATTTATTATATATATTATT
*
87603714 ATTA-TT-TTACAT-TATTATT
1 ATTATTTATTATATATATTATT
* *
87603733 TTTATATTATTAT-TATA-TCTT
1 ATTAT-TTATTATATATATTATT
* *
87603754 ACT-TGTATTATATAT-TTATT
1 ATTATTTATTATATATATTATT
87603774 AATTATTTA-TATATAT
1 -ATTATTTATTATATAT
87603790 TGTTCTTACA
Statistics
Matches: 85, Mismatches: 17, Indels: 26
0.66 0.13 0.20
Matches are distributed among these distances:
18 9 0.11
19 26 0.31
20 17 0.20
21 17 0.20
22 12 0.14
23 4 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTATTTATTATATATATTATT
Found at i:87603694 original size:20 final size:17
Alignment explanation
Indices: 87603653--87603697 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
87603643 ACATTATAAG
87603653 ATTATTTTATTATATAT
1 ATTATTTTATTATATAT
87603670 ATTATTATTATTTATTATAT
1 ATTATT-TTA-TTA-TATAT
*
87603690 CTTATTTT
1 ATTATTTT
87603698 TTCACAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 5 0.21
20 10 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTATATAT
Found at i:87603741 original size:14 final size:14
Alignment explanation
Indices: 87603710--87603746 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
87603700 CACAAATTAT
87603710 TATTATTA-TTTTA
1 TATTATTATTTTTA
*
87603723 CATTATTATTTTTA
1 TATTATTATTTTTA
87603737 TATTATTATT
1 TATTATTATT
87603747 ATATCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:87620487 original size:47 final size:44
Alignment explanation
Indices: 87620419--87620775 Score: 245
Period size: 47 Copynumber: 7.6 Consensus size: 44
87620409 TTTGTGCTCT
* * * *
87620419 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATTAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACA-GATGAGAGCC
* * * *
87620465 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA--CAGATGAGAGCC
* * * *
87620513 AGTGTAAAACATGTCTGGGACATGCATCAGCCATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACA-GATGAGAGCC
*
87620559 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCAC--AGATGAGAGCC
* *
87620607 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGA-GATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG---C-ACAGATGAGAGCC
* * * *
87620654 AGTGTAAGACGA-GTCTGGGAAATGCATCAGCTA-AGA-GTTGTGCT
1 AGTGTAAGAC-ATGTCTGGGACATGCATCAGC-ACAGATG-AGAGCC
* * * * *
87620698 AGTATAAGACTTGTTTGGGACATGCATCAGCACGCGTATATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--C--AGATGAGAGCC
87620746 AGTGTAAGACCATGTCTGGGACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
87620776 GGCAATATAT
Statistics
Matches: 249, Mismatches: 37, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.02
44 31 0.12
45 1 0.00
46 35 0.14
47 93 0.37
48 60 0.24
49 18 0.07
50 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGATGAGAGCC
Found at i:87620578 original size:94 final size:93
Alignment explanation
Indices: 87620417--87620775 Score: 367
Period size: 94 Copynumber: 3.8 Consensus size: 93
87620407 GATTTGTGCT
* * * * *
87620417 CTAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATTAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCT
* * *
87620482 GGGACATGGCATCGGCATCCAGACGAGGG
66 GGGACATGGCATCAGCATCAAGA-GAGTG
* *
87620511 CTAGTGTAAAACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCT
87620576 GGGACATGGCATCAGCA-CAGAGATGAGTG
66 GGGACATGGCATCAGCATCA-AGA-GAGTG
* * *
87620605 CCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAC-A-GAGATAGCTAGTGTAAGACGA-
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCAT
* *
87620666 GTCTGGGAAAT-GCATCAGC-T-AAGAGTTGTG
62 GTCTGGGACATGGCATCAGCATCAAGAG-AGTG
* * * * *
87620696 CTAGTATAAGACTTGTTTGGGACATGCATCAGCACGCGTA-TATGAGAGCTAGTGTAAGACCATG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATG
*
87620760 TCTGGGACATGACATC
63 TCTGGGACATGGCATC
87620776 GGCAATATAT
Statistics
Matches: 225, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
90 1 0.00
91 34 0.15
92 16 0.07
93 25 0.11
94 132 0.59
95 17 0.08
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCAGCATCAAGAGAGTG
Found at i:87620682 original size:141 final size:137
Alignment explanation
Indices: 87620410--87620775 Score: 373
Period size: 141 Copynumber: 2.6 Consensus size: 137
87620400 ATTGGGTGAT
* * * *
87620410 TTGTGCTCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TTATTAGAGCCAGTGTAAGA
1 TTGTGC-C-AGTGTAAGACATGTCTGGGACATGCATCAG-CACAGATATGAGAGCCAGTGTAAGA
* * *
87620474 CCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAAACATGTCTGGGACATGCA
63 CCATGTCTGGGACAT-GCATCAGCATCCAGACGAGAGCTAGTGTAAAACATGTCTGGGAAATGCA
* *
87620539 TCAGC-CATAC
127 TCAGCTAAGAC
* *
87620549 TATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGTGCCAGTGTAA
1 T-TG-T-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGATATGAGAGCCAGTGTAA
* * *
87620614 GA-CATGTCTGGGACATGCATCAGCCTCGACAGA-GATAGCTAGTGTAAGACGA-GTCTGGGAAA
61 GACCATGTCTGGGACATGCATCAGCATC--CAGACGAGAGCTAGTGTAAAAC-ATGTCTGGGAAA
*
87620676 TGCATCAGCTAAGAG
123 TGCATCAGCTAAGAC
* * * * * *
87620691 TTGTGCTAGTATAAGACTTGTTTGGGACATGCATCAGCACGCGTATATGAGAGCTAGTGTAAGAC
1 TTGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAC-AG-ATATGAGAGCCAGTGTAAGAC
87620756 CATGTCTGGGACATGACATC
64 CATGTCTGGGACATG-CATC
87620776 GGCAATATAT
Statistics
Matches: 190, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
137 10 0.05
138 13 0.07
139 28 0.15
140 36 0.19
141 72 0.38
142 31 0.16
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (137 bp):
TTGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACAGATATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGCATCAGCATCCAGACGAGAGCTAGTGTAAAACATGTCTGGGAAATGCATCAG
CTAAGAC
Found at i:87624065 original size:29 final size:27
Alignment explanation
Indices: 87624031--87624133 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
87624021 TACTCAATCA
*
87624031 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
87624060 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
87624089 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
87624118 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
87624134 ATCTCATCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:87631291 original size:29 final size:27
Alignment explanation
Indices: 87631257--87631359 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
87631247 TACTCAATCA
*
87631257 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
87631286 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
87631315 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
87631344 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
87631360 ATCTCATCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:87642061 original size:18 final size:18
Alignment explanation
Indices: 87642038--87642082 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
87642028 GAGAGACGAG
87642038 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAATTGAAAA
* *
87642056 ATAAAAATAAATTGAAAA
1 AGAAAAAGAAATTGAAAA
87642074 AGAAAAAGA
1 AGAAAAAGA
87642083 GAGTGAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (18 bp):
AGAAAAAGAAATTGAAAA
Found at i:87642105 original size:21 final size:20
Alignment explanation
Indices: 87642072--87642111 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87642062 ATAAATTGAA
87642072 AAAGAAAAAGAGAGTGAGAG
1 AAAGAAAAAGAGAGTGAGAG
* *
87642092 AAAGCAAAACGAGATTGAGA
1 AAAG-AAAAAGAGAGTGAGA
87642112 TTGAACAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.05, G:0.30, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAGAGAGTGAGAG
Found at i:87652696 original size:43 final size:43
Alignment explanation
Indices: 87652603--87652749 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
87652593 TATCCTAGAT
** * ** * *
87652603 ATGGTCTTACATGTCATCATATATCAATGCCAACATCCTAGAC
1 ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
* * * *
87652646 GTAGTCTTACATGAAATCATATAACGATGCCAATGTCCCACAC
1 ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
* * *
87652689 ATGGTCTTACAGGTAAAAACA-AT-ACAATTCCAATGTCCCAAAC
1 ATGGTCTTACA--TGAAATCATATAACAATGCCAATGTCCCAAAC
*
87652732 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGAAATC
87652750 TCATCTCGAT
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
41 4 0.05
43 70 0.85
44 2 0.02
45 6 0.07
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCATATAACAATGCCAATGTCCCAAAC
Found at i:87653294 original size:28 final size:29
Alignment explanation
Indices: 87653243--87653299 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
87653233 TATTTCACAT
*
87653243 TTTAACCCCTCAATTTACATTTTTCTCAA
1 TTTAACCCCTCAATTGACATTTTTCTCAA
* *
87653272 TTTAATCCCT-AATTGACATTTTTGTCAA
1 TTTAACCCCTCAATTGACATTTTTCTCAA
87653300 AAATCACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTAACCCCTCAATTGACATTTTTCTCAA
Found at i:87655319 original size:2 final size:2
Alignment explanation
Indices: 87655312--87655355 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
87655302 CTGAATATTC
87655312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87655354 AT
1 AT
87655356 TTTCCTCCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87658574 original size:21 final size:20
Alignment explanation
Indices: 87658535--87658574 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87658525 CAAAACTTGT
*
87658535 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
87658555 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
87658575 AAAGCTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:87660194 original size:47 final size:47
Alignment explanation
Indices: 87660096--87660223 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
87660086 AATCGATAAG
* * * *** *
87660096 TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTTATTCTGGAG
1 TACCTATACTATGGCCTGTAGCCAAATCAAGGTAACTTACTCCAAAA
87660143 TACCTATACTATGGCCTGTAGCCAAATCAAGGTAACTT-CTCACAAAA
1 TACCTATACTATGGCCTGTAGCCAAATCAAGGTAACTTACTC-CAAAA
* *
87660190 TACCTATA-TCATGGCCCGTATCCAAATCAAGGTA
1 TACCTATACT-ATGGCCTGTAGCCAAATCAAGGTA
87660224 TTATTCACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.04
47 67 0.96
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (47 bp):
TACCTATACTATGGCCTGTAGCCAAATCAAGGTAACTTACTCCAAAA
Found at i:87665365 original size:63 final size:63
Alignment explanation
Indices: 87665286--87665410 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
87665276 ACACTAACTT
* *
87665286 TTAGTTTTGTACTAGGATTAATTTGTTAATTAACCTTCATTAACTATGTTTTAATTAAATAAG
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTAATTAACTATGTTTTAATTAAATAAG
87665349 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTAATTAACTATGTTTTAATTAAATAA
1 TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTAATTAACTATGTTTTAATTAAATAA
87665411 ACCTTTAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (63 bp):
TTAGTTTTATACTAGGATTAATTTGTTAATTAACCTTAATTAACTATGTTTTAATTAAATAAG
Found at i:87668782 original size:6 final size:6
Alignment explanation
Indices: 87668773--87668810 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
87668763 CACCGTAATG
87668773 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
87668811 CAGGTACGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:87669678 original size:15 final size:16
Alignment explanation
Indices: 87669658--87669696 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
87669648 CCGTTTTCTT
*
87669658 TTTCTTTCCTTTTTC-
1 TTTCTTTCCTATTTCG
87669673 TTTCTTTCCTATTTCG
1 TTTCTTTCCTATTTCG
87669689 TTTCTTTC
1 TTTCTTTC
87669697 TCTGTTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTTCCTATTTCG
Found at i:87676467 original size:5 final size:5
Alignment explanation
Indices: 87676445--87676494 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
87676435 GTTGTGGTAT
*
87676445 GGGGA GGGAGA CGGGA GGGGA GGGGA GGGGA GGGGA GGGGA GGGGA GGGG
1 GGGGA GGG-GA GGGGA GGGGA GGGGA GGGGA GGGGA GGGGA GGGGA GGGG
87676495 GAGAGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 38 0.90
6 4 0.10
ACGTcount: A:0.20, C:0.02, G:0.78, T:0.00
Consensus pattern (5 bp):
GGGGA
Found at i:87683239 original size:29 final size:29
Alignment explanation
Indices: 87683207--87683265 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
87683197 TGTGTATGCT
87683207 TGGTTTAGGGAAGACAAGGGTTGCATGAG
1 TGGTTTAGGGAAGACAAGGGTTGCATGAG
87683236 TGGTTTAGGGAAGACAAGGGTTGCATGAG
1 TGGTTTAGGGAAGACAAGGGTTGCATGAG
87683265 T
1 T
87683266 AAATTTTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.41, T:0.25
Consensus pattern (29 bp):
TGGTTTAGGGAAGACAAGGGTTGCATGAG
Found at i:87688203 original size:42 final size:42
Alignment explanation
Indices: 87688150--87688229 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
87688140 ATGTTATAGT
**
87688150 ATATCGATGCCAATAG-CCCAGCTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCCAGAAATGGTCTTACACGAATCTC
87688192 ATATCGATGCCAATGTCCCAGAAATGGTCTTACACGAA
1 ATATCGATGCCAATGTCCCAGAAATGGTCTTACACGAA
87688230 ATCACATCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGAAATGGTCTTACACGAATCTC
Found at i:87692491 original size:47 final size:47
Alignment explanation
Indices: 87692430--87692588 Score: 282
Period size: 47 Copynumber: 3.4 Consensus size: 47
87692420 GCACTAATAT
*
87692430 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAG
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
*
87692477 ATGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
*
87692524 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
*
87692571 AAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGAC
87692589 ATGCCAAGGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 107 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (47 bp):
AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
Found at i:87692690 original size:55 final size:54
Alignment explanation
Indices: 87692579--87692762 Score: 232
Period size: 55 Copynumber: 3.4 Consensus size: 54
87692569 ATAAGGATAT
* * * ***
87692579 CATGTAAGA-CATGCCAAGGCA-AGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
*
87692631 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATCC
*
87692686 CATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGCAAGGATCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
* *
87692739 CACGTAAGACCATGTCAAGACATG
1 CATGTAAGACCATGCCAAGACATG
87692763 ACAATGGTAA
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
52 13 0.11
53 42 0.36
54 13 0.11
55 44 0.38
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
Found at i:87692777 original size:53 final size:54
Alignment explanation
Indices: 87692579--87692776 Score: 224
Period size: 53 Copynumber: 3.7 Consensus size: 54
87692569 ATAAGGATAT
* * * * ***
87692579 CATGTAAGA-CATGCCAAGGCA-AGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
* *
87692631 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC-AAGGATCC
* *
87692686 CATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
* * *
87692739 CACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTC
87692777 AAAAGGGAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 13 0.10
53 53 0.42
54 13 0.10
55 44 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATCC
Found at i:87698516 original size:42 final size:42
Alignment explanation
Indices: 87698484--87698578 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
87698474 TAGCCCAGCT
87698484 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
1 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
*
87698526 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
87698568 ATGGTCTTACA
1 ATGGTCTTACA
87698579 CAAAATCACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACATGAATCTCATATCGATGCCAATGTCTCAAAC
Found at i:87702231 original size:19 final size:19
Alignment explanation
Indices: 87702204--87702240 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87702194 GTCATCATAG
87702204 ATTCATAGGCATAACTTAA
1 ATTCATAGGCATAACTTAA
*
87702223 ATTCGTAGGCATAACTTA
1 ATTCATAGGCATAACTTA
87702241 CACATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTCATAGGCATAACTTAA
Found at i:87704198 original size:20 final size:21
Alignment explanation
Indices: 87704148--87704246 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 21
87704138 ACTTGTACAG
* *
87704148 GTTTGCCCTTCGGTGCCTCTA
1 GTTTGCACTTCGGTGCCCCTA
*
87704169 TTTTGCACTTCGGTGCCCCT-
1 GTTTGCACTTCGGTGCCCCTA
* ** * **
87704189 GTTTGTACTTTTGTACTTCTA
1 GTTTGCACTTCGGTGCCCCTA
* **
87704210 -TTTTCACTTTTGTGCCCCT-
1 GTTTGCACTTCGGTGCCCCTA
*
87704229 GTTTGCACTACGGTGCCC
1 GTTTGCACTTCGGTGCCC
87704247 TTGCTTGTAG
Statistics
Matches: 57, Mismatches: 19, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.08, C:0.29, G:0.19, T:0.43
Consensus pattern (21 bp):
GTTTGCACTTCGGTGCCCCTA
Found at i:87715992 original size:2 final size:2
Alignment explanation
Indices: 87715985--87716012 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87715975 TAGCATTTGA
87715985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87716013 CTTATCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87720656 original size:3 final size:3
Alignment explanation
Indices: 87720643--87720747 Score: 51
Period size: 3 Copynumber: 34.0 Consensus size: 3
87720633 ATATTTAAAT
* *
87720643 ATA AAA ATA ATA AT- ATAA ATA ATA ATA TATA TATAA ATA ATA CAGA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA -ATA
* *
87720689 ATAA ATA ATA TGTA ATA ATA AT- ATAA ATA TATA AT- AGA AT- ATA A-A
1 AT-A ATA ATA -ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA
87720734 ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA
87720748 TAGTAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
2 11 0.14
3 46 0.57
4 22 0.28
5 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:87720669 original size:18 final size:18
Alignment explanation
Indices: 87720643--87720749 Score: 98
Period size: 18 Copynumber: 5.9 Consensus size: 18
87720633 ATATTTAAAT
*
87720643 ATAAAAATAATAATATAA
1 ATAATAATAATAATATAA
87720661 ATAATAAT-ATATATATAA
1 ATAATAATAATA-ATATAA
*
87720679 ATAATACAGAATAA-AT-A
1 ATAATA-ATAATAATATAA
*
87720696 ATATGTAATAATAATATAA
1 ATA-ATAATAATAATATAA
*
87720715 ATATATAAT-AGAATATAAA
1 ATA-ATAATAATAATAT-AA
87720734 ATAAT-ATAATAATATA
1 ATAATAATAATAATATA
87720750 GTAAAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
17 16 0.22
18 39 0.53
19 16 0.22
20 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATAATAATAATATAA
Found at i:87720705 original size:14 final size:13
Alignment explanation
Indices: 87720648--87720712 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
87720638 TAAATATAAA
*
87720648 AATAATAATAT-A
1 AATAATAATATGT
*
87720660 AATAATAATATAT
1 AATAATAATATGT
*
87720673 ATATAAATAATACAG-
1 A-AT-AATAATA-TGT
87720688 AATAAATAATATGT
1 AAT-AATAATATGT
87720702 AATAATAATAT
1 AATAATAATAT
87720713 AAATATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
12 11 0.25
13 10 0.23
14 15 0.34
15 8 0.18
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (13 bp):
AATAATAATATGT
Found at i:87720757 original size:23 final size:23
Alignment explanation
Indices: 87720688--87720759 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
87720678 AATAATACAG
*
87720688 AATA-AATAATAT-GT-AATAAT
1 AATATAATAATATAGTAAAAAAT
*
87720708 AATATAAATATATAATAGAATATAAAAT
1 AATAT-AATA-AT-ATAG--TAAAAAAT
87720736 AATATAATAATATAGTAAAAAAT
1 AATATAATAATATAGTAAAAAAT
87720759 A
1 A
87720760 TGAATATGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
20 4 0.10
22 4 0.10
23 10 0.24
24 2 0.05
25 5 0.12
26 2 0.05
27 5 0.12
28 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
AATATAATAATATAGTAAAAAAT
Found at i:87720759 original size:20 final size:20
Alignment explanation
Indices: 87720708--87720765 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
87720698 ATGTAATAAT
87720708 AATAT-AAAT-ATATAATAG
1 AATATAAAATAATATAATAG
87720726 AATATAAAATAATATAATA-
1 AATATAAAATAATATAATAG
87720745 ATATAGTAAAA-AATATGAATA
1 A-ATA-TAAAATAATAT-AATA
87720766 TGTCAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 16 0.46
21 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
AATATAAAATAATATAATAG
Found at i:87723450 original size:40 final size:39
Alignment explanation
Indices: 87723386--87723553 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 39
87723376 TCTTCGGAAT
* ** *
87723386 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
87723425 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
87723465 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
87723505 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
*
87723545 TTATCCCGG
1 TTAGCCCGG
87723554 GTATCATTCA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:87723513 original size:80 final size:80
Alignment explanation
Indices: 87723377--87723553 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
87723367 AACCGAGCTT
* * * * **
87723377 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCAGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCAGGTCTTAACCCGGATATAAT
*
87723441 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* ** * *
87723456 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCAGGTCTTAACCCGGATATAA
* *
87723520 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
*
87723536 CTTCGGGACTTATCCCGG
1 CTTCGGGACTTAGCCCGG
87723554 GTATCATTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 10 0.12
80 68 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCAGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:87724434 original size:2 final size:2
Alignment explanation
Indices: 87724427--87724456 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87724417 ATGTGCAAAC
87724427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87724457 GCTAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87727069 original size:24 final size:24
Alignment explanation
Indices: 87727036--87727085 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
87727026 ATCCCTGACA
* *
87727036 CAATGGAAAGGTTGAAAAGGTTAC
1 CAATGGAAAGGTCGAAAAGGATAC
*
87727060 CAATGTAAAGGTCGAAAAGGATAC
1 CAATGGAAAGGTCGAAAAGGATAC
87727084 CA
1 CA
87727086 TTGAAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (24 bp):
CAATGGAAAGGTCGAAAAGGATAC
Found at i:87727093 original size:24 final size:24
Alignment explanation
Indices: 87727042--87727111 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
87727032 GACACAATGG
* * * *
87727042 AAAGGTTGAAAAGGTTACCAATGT
1 AAAGGTAGAAAAGGATACCATTGA
*
87727066 AAAGGTCGAAAAGGATACCATTGA
1 AAAGGTAGAAAAGGATACCATTGA
* * *
87727090 AAAGATAAAAAAGGAAACCATT
1 AAAGGTAGAAAAGGATACCATT
87727112 ATATCAATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (24 bp):
AAAGGTAGAAAAGGATACCATTGA
Found at i:87727570 original size:13 final size:13
Alignment explanation
Indices: 87727548--87727577 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87727538 TGTTATGTGA
*
87727548 AAATGGATATTTG
1 AAATGAATATTTG
87727561 AAATGAATATTTG
1 AAATGAATATTTG
87727574 AAAT
1 AAAT
87727578 AAAATGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (13 bp):
AAATGAATATTTG
Done.