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 331 of 345
Found at i:98970758 original size:44 final size:45
Alignment explanation
Indices: 98970663--98970796 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
98970653 ACAGGACAGA
* *
98970663 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
98970709 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
98970753 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
98970797 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:98976866 original size:46 final size:44
Alignment explanation
Indices: 98976807--98976921 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
98976797 ACAGGACAGA
* *
98976807 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
98976853 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
98976897 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
98976922 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:98976902 original size:44 final size:45
Alignment explanation
Indices: 98976807--98976940 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
98976797 ACAGGACAGA
* *
98976807 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
98976853 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
98976897 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
98976941 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:98980403 original size:46 final size:45
Alignment explanation
Indices: 98980353--98980475 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
98980343 GATGAGAGCT
* *
98980353 AGTGTAAGACATGTCTGGTACATGCATCGGCCT-CGAGTTGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGT--GCC
* * *
98980399 AGTGTAAGACATGTCTGGGACATGTATTGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCC
*
98980443 AGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
98980476 ACGGATGTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.17
45 15 0.23
46 39 0.60
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCC
Found at i:98986065 original size:105 final size:105
Alignment explanation
Indices: 98985883--98986095 Score: 392
Period size: 105 Copynumber: 2.0 Consensus size: 105
98985873 AGAGAGAGAA
*
98985883 GAAACTTTCATGGCTTAATTGGGTAAGTTTACTTGTCCCGTTTTTAGTAATTTTGATATTTTTGA
1 GAAACTTTCATGGCTTAATTGGGTAAGTTTACTCGTCCCGTTTTTAGTAATTTTGATATTTTTGA
98985948 AACTAGGATAGCTTAATCTATCTATTTGAGGGATCAATTT
66 AACTAGGATAGCTTAATCTATCTATTTGAGGGATCAATTT
*
98985988 GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTCGTCCCGTTTTTAGTAATTTTGATATTTTTGA
1 GAAACTTTCATGGCTTAATTGGGTAAGTTTACTCGTCCCGTTTTTAGTAATTTTGATATTTTTGA
98986053 AACT-GAGATAGCTTAATCTATCTATTTGAGGGATCAATTT
66 AACTAG-GATAGCTTAATCTATCTATTTGAGGGATCAATTT
98986093 GAA
1 GAA
98986096 GAGTTATCAA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
104 1 0.01
105 104 0.99
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (105 bp):
GAAACTTTCATGGCTTAATTGGGTAAGTTTACTCGTCCCGTTTTTAGTAATTTTGATATTTTTGA
AACTAGGATAGCTTAATCTATCTATTTGAGGGATCAATTT
Found at i:98986617 original size:17 final size:17
Alignment explanation
Indices: 98986595--98986628 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98986585 GCAGTATGAT
*
98986595 TTATAATTATGTGAATG
1 TTATAAATATGTGAATG
*
98986612 TTATAAATGTGTGAATG
1 TTATAAATATGTGAATG
98986629 AATATATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TTATAAATATGTGAATG
Found at i:98990396 original size:13 final size:13
Alignment explanation
Indices: 98990378--98990412 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
98990368 TTTAATTGGG
*
98990378 TAATTAATTTATT
1 TAATTAATTTAAT
*
98990391 TAATTAAATTAAT
1 TAATTAATTTAAT
98990404 TAATTAATT
1 TAATTAATT
98990413 AATATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:98995401 original size:33 final size:32
Alignment explanation
Indices: 98995364--98995570 Score: 204
Period size: 33 Copynumber: 6.4 Consensus size: 32
98995354 TCTTTTTGAG
* *
98995364 TGGTACATACAAAATATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCA-A
* ** *
98995397 TGGTATACACAAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAA
* * **
98995429 -GTGTACACACAAAGTGTACATAACCTTTTCAA
1 TG-GTACACACAAAGTATACCTTTCCTTTTCAA
* * *
98995461 -GTGTACACATATAGTGTACCTTTCCTTTTCAA
1 TG-GTACACACAAAGTATACCTTTCCTTTTCAA
*
98995493 GTGGTATACACAAAGTATACCTTTCCTTTTCATA
1 -TGGTACACACAAAGTATACCTTTCCTTTTCA-A
*
98995527 TGGTATACACAAAGTATACCTTTCCTTTTCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAA
98995559 -GTGTACACACAA
1 TG-GTACACACAA
98995571 GGTGTACATA
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
31 2 0.01
32 64 0.43
33 81 0.54
34 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (32 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCAA
Found at i:98995453 original size:32 final size:32
Alignment explanation
Indices: 98995366--98995590 Score: 193
Period size: 32 Copynumber: 6.9 Consensus size: 32
98995356 TTTTTGAGTG
* * **
98995366 GTACATACAAAATATACCTTTCCTTTTCATA-T
1 GTACACACAAAGTATACCTAACCTTTTCA-AGT
* *
98995398 GGTATACACAAAGTATACCTAACCTTTCCAAGT
1 -GTACACACAAAGTATACCTAACCTTTTCAAGT
* *
98995431 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* * * **
98995463 GTACACATATAGTGTACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* **
98995495 GGTATACACAAAGTATACCTTTCCTTTTCATA-T
1 -GTACACACAAAGTATACCTAACCTTTTCA-AGT
* **
98995528 GGTATACACAAAGTATACCTTTCCTTTTCAAGT
1 -GTACACACAAAGTATACCTAACCTTTTCAAGT
* * *
98995561 GTACACACAAGGTGTACATAACCTTTTCAA
1 GTACACACAAAGTATACCTAACCTTTTCAA
98995591 ATTGTACCAT
Statistics
Matches: 163, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
32 81 0.50
33 81 0.50
34 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (32 bp):
GTACACACAAAGTATACCTAACCTTTTCAAGT
Found at i:98995512 original size:130 final size:129
Alignment explanation
Indices: 98995345--98995590 Score: 393
Period size: 130 Copynumber: 1.9 Consensus size: 129
98995335 TACACTCGAG
* ** *
98995345 GTGTACGTTTCTTTTTGAGTGGTACATACAAAATATACCTTTCCTTTTCATATGGTATACACAAA
1 GTGTACCTTTCTTTTCAAGTGGTACACACAAAATATACCTTTCCTTTTCATATGGTATACACAAA
98995410 GTATACCTAACCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGTACACATATA
66 GTATACCTAACCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGTACACATATA
* *
98995474 GTGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAA
1 GTGTACCTTT-CTTTTCAAGTGGTACACACAAAATATACCTTTCCTTTTCATATGGTATACACAA
** * *
98995539 AGTATACCTTTCCTTTTCAAGTGTACACACAAGGTGTACATAACCTTTTCAA
65 AGTATACCTAACCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAA
98995591 ATTGTACCAT
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
129 9 0.08
130 97 0.92
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (129 bp):
GTGTACCTTTCTTTTCAAGTGGTACACACAAAATATACCTTTCCTTTTCATATGGTATACACAAA
GTATACCTAACCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGTACACATATA
Found at i:98995983 original size:27 final size:27
Alignment explanation
Indices: 98995953--98996006 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
98995943 TCATATAACC
* *
98995953 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
98995980 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
98996007 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:99000450 original size:95 final size:95
Alignment explanation
Indices: 99000286--99000476 Score: 337
Period size: 95 Copynumber: 2.0 Consensus size: 95
99000276 AGTTGGCTCA
* * *
99000286 ATTTTATCTTCCGATCTCAATTTTACTGACTTAGATGAATTAGTTCAGATTTCACCGATTAATCC
1 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACAGATTAATCC
99000351 GGGACTAATGGACAGGTGTACAACAAGATT
66 GGGACTAATGGACAGGTGTACAACAAGATT
* *
99000381 ATTTTATCTTTCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACAGATTAATCT
1 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACAGATTAATCC
99000446 GGGACTAATGGACAGGTGTACAACAAGATT
66 GGGACTAATGGACAGGTGTACAACAAGATT
99000476 A
1 A
99000477 CCTTCCGGTC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (95 bp):
ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACAGATTAATCC
GGGACTAATGGACAGGTGTACAACAAGATT
Found at i:99015464 original size:27 final size:27
Alignment explanation
Indices: 99015434--99015494 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
99015424 TCAGGAAATG
*
99015434 AAGCCTTTGTAGATAACTTTAAAAAGA
1 AAGCCTTTGTAGATAACTCTAAAAAGA
* * * *
99015461 AAGCCTTTGTGGCTAACTCTGAAAAGG
1 AAGCCTTTGTAGATAACTCTAAAAAGA
99015488 AAGCCTT
1 AAGCCTT
99015495 CATGTCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AAGCCTTTGTAGATAACTCTAAAAAGA
Found at i:99024735 original size:39 final size:39
Alignment explanation
Indices: 99024594--99024735 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
99024584 GAAAGATCTT
*
99024594 ATTCAGTATAATTAGTGGATAT-TGCTCATTTTGAGCAAAC
1 ATTCAGTATAATCAGTGGATATCT-CTCATTTT-AGCAAAC
* * * *
99024634 ATTCTGTATAATCAGTGGATATCGCTCATTTCAGCAAAA
1 ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
* * *
99024673 ATTCAGTATGACCAGTGGATATCTCTCGTTTTAGCAAAC
1 ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
99024712 ATTCAGTATAATCAGTGGATATCT
1 ATTCAGTATAATCAGTGGATATCT
99024736 GTAACACCCC
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 60 0.69
40 27 0.31
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (39 bp):
ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
Found at i:99025919 original size:2 final size:2
Alignment explanation
Indices: 99025912--99025961 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
99025902 ATTTGCACAT
*
99025912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TCA TA -A TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
99025953 TA TA TA TA T
1 TA TA TA TA T
99025962 CAATTCTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 40 0.93
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99028394 original size:58 final size:57
Alignment explanation
Indices: 99028314--99028454 Score: 142
Period size: 57 Copynumber: 2.5 Consensus size: 57
99028304 ATTATAGAAA
* * * * *
99028314 GGATTTAG-CTCGGACGGGTAATCCTGATATAATCTCCCTCGGGCATATGTTACA-ATT
1 GGATTTAGCCT-GGACTGGTAATCCTAAT-TAAGCTCCCTCGAGCATATGTTACATAAT
* * ** *
99028371 AGGGTTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTTTGAGCATATGTTACATAAT
1 -GGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCCCTCGAGCATATGTTACATAAT
*
99028429 GGATTCAGCCTGGACTGGTAATCCTA
1 GGATTTAGCCTGGACTGGTAATCCTA
99028455 TAATACGATA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 43 0.62
58 24 0.35
59 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (57 bp):
GGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCCCTCGAGCATATGTTACATAAT
Found at i:99029638 original size:21 final size:21
Alignment explanation
Indices: 99029609--99029685 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
99029599 TCCCTTGGAC
*
99029609 CACATAGGCGTGTCCCAAGGT
1 CACACAGGCGTGTCCCAAGGT
99029630 CACACAGGCGTGTCCCAAGGT
1 CACACAGGCGTGTCCCAAGGT
99029651 CACACAGGCGTGTCCCAAGGT
1 CACACAGGCGTGTCCCAAGGT
*
99029672 CACACGGGCGTGTC
1 CACACAGGCGTGTC
99029686 TCTTGGACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (21 bp):
CACACAGGCGTGTCCCAAGGT
Found at i:99029700 original size:22 final size:22
Alignment explanation
Indices: 99029672--99029728 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
99029662 GTCCCAAGGT
99029672 CACACGGGCGTGTCTCTTGGAC
1 CACACGGGCGTGTCTCTTGGAC
*
99029694 CACACGGGCGTGTCTCTTGGAG
1 CACACGGGCGTGTCTCTTGGAC
99029716 CACACGGGCGTGT
1 CACACGGGCGTGT
99029729 AACTTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.35, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTCTCTTGGAC
Found at i:99030520 original size:75 final size:75
Alignment explanation
Indices: 99030393--99030823 Score: 417
Period size: 75 Copynumber: 5.8 Consensus size: 75
99030383 TTACAATAAC
* * * * ** *
99030393 GCTCGTTTGAGCAACTTTTAGTATATTTAGTAGACATTGCCCTTTTGAGCACGTTTAGTATAATC
1 GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATC
99030458 AGTAGATATT
66 AGTAGATATT
* * *
99030468 GCTTGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACGTTCAGTATAAAC
1 GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATC
99030533 AGTAGATATT
66 AGTAGATATT
* * * * * *
99030543 CCTCGTTTGAGCAACTTTCAGTACAATCAATAGACATTG-TTCTTTTGAGTACGTTCAATATAAT
1 GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTT-TTTTGAGCACGTTCAGTATAAT
99030607 CAGTAGATATT
65 CAGTAGATATT
* * * * * * ** * * *
99030618 ACTCCTTTGAGC-GCATTGAATATAATCAGTAGATATTGCTCGTTTGAGCACATTTAGTATAACC
1 GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATC
99030682 AGTAGATATT
66 AGTAGATATT
* * * * * * *
99030692 TCT-ATTTGAGCAACTTTC-A-ATAATCAGTAGACATTGCTCTTTTGAACACATCCAGTGTAATC
1 GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATC
99030754 AGTAGATATT
66 AGTAGATATT
* * * * ** **
99030764 GCTCGTCTGAGC-A-TATTCAGTATAATAAGTAGATATTGCTCATTTGAGCATATTCAGTAT
1 GCTCGTTTGAGCAACT-TTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTAT
99030824 TTAACCAATT
Statistics
Matches: 291, Mismatches: 58, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
71 1 0.00
72 52 0.18
73 14 0.05
74 85 0.29
75 139 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (75 bp):
GCTCGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATC
AGTAGATATT
Found at i:99030609 original size:112 final size:112
Alignment explanation
Indices: 99030473--99030776 Score: 325
Period size: 112 Copynumber: 2.7 Consensus size: 112
99030463 ATATTGCTTG
* * *
99030473 TTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACGTTCAGTATAAACAGTAG
1 TTTGAGCAACGTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACATTCAGTATAATCAGTAG
* *
99030538 ATATTCCTCGTTTGAGCAAC-TTTCAGTACAATCAATAGACATTGTTCT-
66 ATATTGCTCGTTTGAGCAACATTT-AGTACAACCAATAGACA-T-TTCTA
* * * ** * * * *
99030586 TTTGAG-TACGTTCAATATAATCAGTAGATATTACTCCTTTGAGCGCATTGAATATAATCAGTAG
1 TTTGAGCAACGTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACATTCAGTATAATCAGTAG
* * *
99030650 ATATTGCTCGTTTGAGC-ACATTTAGTATAACCAGTAGATATTTCTA
66 ATATTGCTCGTTTGAGCAACATTTAGTACAACCAATAGACATTTCTA
* * * *
99030696 TTTGAGCAACTTTC-A-ATAATCAGTAGACATTGCTCTTTTGAA-CACATCCAGTGTAATCAGTA
1 TTTGAGCAACGTTCAATATAATCAGTAGACATTGCT-TTTTTAAGCACATTCAGTATAATCAGTA
*
99030758 GATATTGCTCGTCTGAGCA
65 GATATTGCTCGTTTGAGCA
99030777 TATTCAGTAT
Statistics
Matches: 155, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
109 53 0.34
110 11 0.07
111 20 0.13
112 65 0.42
113 6 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (112 bp):
TTTGAGCAACGTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACATTCAGTATAATCAGTAG
ATATTGCTCGTTTGAGCAACATTTAGTACAACCAATAGACATTTCTA
Found at i:99030755 original size:37 final size:37
Alignment explanation
Indices: 99030393--99030823 Score: 368
Period size: 37 Copynumber: 11.6 Consensus size: 37
99030383 TTACAATAAC
* * * * * *
99030393 GCTCGTTTGAGCAACTTTTAGTATATTTAGTAGACATT
1 GCTCTTTTGAGC-ACATTCAGTATAATCAGTAGATATT
* * *
99030431 GCCCTTTTGAGCACGTTTAGTATAATCAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* * *
99030468 GCT-TGTTTGAGCAACTTTCAATATAATCAGTAGACATT
1 GCTCT-TTTGAGC-ACATTCAGTATAATCAGTAGATATT
* * * *
99030506 GCTTTTTTAAGCACGTTCAGTATAAACAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* * * * * *
99030543 CCTCGTTTGAGCAACTTTCAGTACAATCAATAGACATT
1 GCTCTTTTGAGC-ACATTCAGTATAATCAGTAGATATT
* * * *
99030581 GTTCTTTTGAGTACGTTCAATATAATCAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* * * * *
99030618 ACTCCTTTGAGCGCATTGAATATAATCAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* * *
99030655 GCTCGTTTGAGCACATTTAGTATAACCAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* *
99030692 --TCTATTTGAGCAACTTTCA--ATAATCAGTAGACATT
1 GCTCT-TTTGAGC-ACATTCAGTATAATCAGTAGATATT
* * *
99030727 GCTCTTTTGAACACATCCAGTGTAATCAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* * * *
99030764 GCTCGTCTGAGCATATTCAGTATAATAAGTAGATATT
1 GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
* *
99030801 GCTCATTTGAGCATATTCAGTAT
1 GCTCTTTTGAGCACATTCAGTAT
99030824 TTAACCAATT
Statistics
Matches: 317, Mismatches: 66, Indels: 21
0.78 0.16 0.05
Matches are distributed among these distances:
35 21 0.07
36 14 0.04
37 213 0.67
38 68 0.21
39 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (37 bp):
GCTCTTTTGAGCACATTCAGTATAATCAGTAGATATT
Found at i:99033802 original size:30 final size:30
Alignment explanation
Indices: 99033753--99033826 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
99033743 CTGGCACATG
99033753 GCCGTGTG-CCAGCCTGTGTGGCTCACACA
1 GCCGTGTGTCCAGCCTGTGTGGCTCACACA
99033782 GCCGTGTGTCCAG-CTCGTGTGGCTCACACA
1 GCCGTGTGTCCAGCCT-GTGTGGCTCACACA
*
99033812 GCTGTGTGTCCAGCC
1 GCCGTGTGTCCAGCC
99033827 CATGTGAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 10 0.24
30 30 0.73
31 1 0.02
ACGTcount: A:0.12, C:0.34, G:0.31, T:0.23
Consensus pattern (30 bp):
GCCGTGTGTCCAGCCTGTGTGGCTCACACA
Found at i:99034723 original size:61 final size:59
Alignment explanation
Indices: 99034651--99034766 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 59
99034641 AGTGATTATC
* * * *
99034651 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATT-ATTTAATAAGAT
1 TTAACATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATAAGAT
99034712 TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
99034767 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 13 0.26
59 10 0.20
60 1 0.02
61 26 0.52
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATAAGAT
Found at i:99037867 original size:13 final size:14
Alignment explanation
Indices: 99037838--99037875 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
99037828 GTTTACATGT
* *
99037838 AAAAGGTTTTACGA
1 AAAATGTTTTACAA
99037852 AAAATGTTTTACAA
1 AAAATGTTTTACAA
99037866 AAAATGTTTT
1 AAAATGTTTT
99037876 CTACATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (14 bp):
AAAATGTTTTACAA
Found at i:99038202 original size:22 final size:22
Alignment explanation
Indices: 99038177--99038220 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
99038167 TAGTCATATA
99038177 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
99038199 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
99038221 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:99038333 original size:15 final size:15
Alignment explanation
Indices: 99038313--99038369 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
99038303 ATTCAATATT
99038313 AATATTTTAATAATA
1 AATATTTTAATAATA
*
99038328 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
99038347 AATATATTAATAATA
1 AATATTTTAATAATA
*
99038362 AATGTTTT
1 AATATTTT
99038370 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:99039873 original size:19 final size:20
Alignment explanation
Indices: 99039845--99039892 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
99039835 TATAAAAATT
* *
99039845 AAAATTATAAAT-TTTATCA
1 AAAATAATAAATGTTTATAA
*
99039864 AAAATAATAACTGTTTATAA
1 AAAATAATAAATGTTTATAA
99039884 AAAATAATA
1 AAAATAATA
99039893 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATAATAAATGTTTATAA
Found at i:99039897 original size:17 final size:17
Alignment explanation
Indices: 99039851--99039902 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
99039841 AATTAAAATT
*
99039851 ATAA-ATTTTATCAAAA
1 ATAATATTTTATAAAAA
99039867 ATAATAACTGTTTATAAAAA
1 ATAAT-A-T-TTTATAAAAA
99039887 ATAATATTTTA-AAAAA
1 ATAATATTTTATAAAAA
99039903 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 2 0.06
19 2 0.06
20 14 0.45
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAATATTTTATAAAAA
Found at i:99044828 original size:29 final size:30
Alignment explanation
Indices: 99044796--99044853 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
99044786 CTAGACCAAA
*
99044796 TTAATCCCTATACTATT-AAATGAATCAAT
1 TTAATCCCTATACTATTAAAAAGAATCAAT
* *
99044825 TTAATCCCTGTACTGTTAAAAAGAATCAA
1 TTAATCCCTATACTATTAAAAAGAATCAA
99044854 ATAAGGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (30 bp):
TTAATCCCTATACTATTAAAAAGAATCAAT
Found at i:99054426 original size:6 final size:6
Alignment explanation
Indices: 99054415--99054442 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
99054405 ACAGTGGAGG
99054415 TTTGAC TTTGAC TTTGAC TTTGAC TTTG
1 TTTGAC TTTGAC TTTGAC TTTGAC TTTG
99054443 GTCTCTGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (6 bp):
TTTGAC
Found at i:99065586 original size:23 final size:23
Alignment explanation
Indices: 99065559--99065625 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
99065549 GGCTTTGCCA
99065559 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* **
99065582 ATCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
99065604 -TCAGGCA-TTTATTTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
99065625 A
1 A
99065626 CTGATTAGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 8 0.23
21 8 0.23
22 1 0.03
23 18 0.51
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:99066859 original size:16 final size:16
Alignment explanation
Indices: 99066838--99066875 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
99066828 AGCGCAGTTT
*
99066838 AGCATTGTTTTTAAGA
1 AGCATTGCTTTTAAGA
99066854 AGCATTGCTTTTAAGA
1 AGCATTGCTTTTAAGA
99066870 AGCATT
1 AGCATT
99066876 TTTGAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (16 bp):
AGCATTGCTTTTAAGA
Found at i:99078825 original size:18 final size:18
Alignment explanation
Indices: 99078804--99078931 Score: 71
Period size: 18 Copynumber: 6.7 Consensus size: 18
99078794 TAACAGCCAG
*
99078804 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* *
99078822 TTATTCAATAA-AATCAG
1 TTATTCAGTAACAATCAA
*
99078839 TTATTCAGTACCAATCAA
1 TTATTCAGTAACAATCAA
*
99078857 TTGATTGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
* *
99078883 TTATTCAGTAAAAATTAGA
1 TTATTCAGTAACAATCA-A
* *
99078902 -TATACAGTAACAATTAA
1 TTATTCAGTAACAATCAA
*
99078919 GTATTCAGTAACA
1 TTATTCAGTAACA
99078932 GTCGATCTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
17 15 0.18
18 50 0.59
19 3 0.04
20 1 0.01
24 1 0.01
25 2 0.02
26 13 0.15
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:99079132 original size:53 final size:53
Alignment explanation
Indices: 99079056--99079173 Score: 157
Period size: 53 Copynumber: 2.2 Consensus size: 53
99079046 GAATAGTAAT
* * * *
99079056 AGTAATAGTAGCAGTACGGTACACAGAGTACCTCATCAAAACAAATCC-AGAAC
1 AGTAACAGTAACAGCACGGTACACAGAGTACCTCATCAAAACAAA-CCTAAAAC
* **
99079109 GGTAACAGTAACAGCACGGTACACAGAGTACCTCATCGGAACAAACCTAAAAC
1 AGTAACAGTAACAGCACGGTACACAGAGTACCTCATCAAAACAAACCTAAAAC
99079162 AGTAACAGTAAC
1 AGTAACAGTAAC
99079174 GGTAACAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.04
53 54 0.96
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (53 bp):
AGTAACAGTAACAGCACGGTACACAGAGTACCTCATCAAAACAAACCTAAAAC
Found at i:99079422 original size:22 final size:20
Alignment explanation
Indices: 99079363--99079422 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 20
99079353 CTTTTCAGTT
99079363 TTCAATTAATTCATATTTTAA
1 TTCAATTAATTC-TATTTTAA
*
99079384 TT-AATTAACATTATATTTTCAA
1 TTCAATT-A-ATTCTATTTT-AA
99079406 TTCAATATAATTCTATT
1 TTCAAT-TAATTCTATT
99079423 CACTTTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 4 0.12
21 9 0.28
22 14 0.44
23 4 0.12
24 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (20 bp):
TTCAATTAATTCTATTTTAA
Found at i:99079921 original size:2 final size:2
Alignment explanation
Indices: 99079914--99079951 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
99079904 TTGTTTTGTT
99079914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99079952 ATAACATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:99087524 original size:42 final size:42
Alignment explanation
Indices: 99087398--99087524 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
99087388 GGGTTACTGA
* * * *
99087398 GATTACGTATAAGACCATATCTGGGATATGGCATCGATATGA
1 GATTACGTGTAAGACCATATCTGGGATATGGCATTGATACGG
* * *
99087440 AACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATTGATACGG
1 GA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATACGG
* * *
99087483 GATTACATGTAAGACCATATATGGGATATGGCATTGGTACGG
1 GATTACGTGTAAGACCATATCTGGGATATGGCATTGATACGG
99087525 TATTGTGTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 36 0.52
43 33 0.48
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
GATTACGTGTAAGACCATATCTGGGATATGGCATTGATACGG
Found at i:99103999 original size:18 final size:18
Alignment explanation
Indices: 99103972--99104006 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99103962 AGCACCAAAG
99103972 CTTTCATCCTCCTCCTCA
1 CTTTCATCCTCCTCCTCA
* *
99103990 CTTTCTTCCTCTTCCTC
1 CTTTCATCCTCCTCCTC
99104007 TTCTTCATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.49, G:0.00, T:0.46
Consensus pattern (18 bp):
CTTTCATCCTCCTCCTCA
Found at i:99108988 original size:38 final size:36
Alignment explanation
Indices: 99108929--99109004 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 36
99108919 AAACGCTACC
*
99108929 ATAAATATAAGAACTATTTTATTATATTAAAAATATAA
1 ATAAATATAAGAAATATTTTATTATATT--AAATATAA
* *
99108967 ATAAATATAATAAATGA-TTTATTGTATTAAATATAA
1 ATAAATATAAGAAAT-ATTTTATTATATTAAATATAA
99109003 AT
1 AT
99109005 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 10 0.29
38 23 0.68
39 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (36 bp):
ATAAATATAAGAAATATTTTATTATATTAAATATAA
Found at i:99109784 original size:25 final size:25
Alignment explanation
Indices: 99109738--99109787 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
99109728 ATATGTACTT
* *
99109738 ATTTTTCTATATTAGATTTAAATTA
1 ATTTTTATATATTAGATATAAATTA
**
99109763 ATTTTTATATATTTTATATAAATTA
1 ATTTTTATATATTAGATATAAATTA
99109788 TAACAAAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTTATATATTAGATATAAATTA
Found at i:99113916 original size:18 final size:18
Alignment explanation
Indices: 99113895--99113930 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99113885 CAATTAAACC
99113895 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
99113913 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
99113931 TAATTGAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:99114033 original size:18 final size:18
Alignment explanation
Indices: 99114010--99114052 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
99114000 AACAATTTAA
99114010 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
99114028 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
99114046 ATGTAAA
1 ATATAAA
99114053 AACAGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:99114186 original size:13 final size:14
Alignment explanation
Indices: 99114157--99114186 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99114147 CCAGAAATGT
99114157 AAATTATTTTTCAG
1 AAATTATTTTTCAG
99114171 AAATTATTTTTC-G
1 AAATTATTTTTCAG
99114184 AAA
1 AAA
99114187 AATATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAG
Found at i:99116368 original size:12 final size:12
Alignment explanation
Indices: 99116351--99116377 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
99116341 CCGAGCACTT
99116351 TATAAACCTTTC
1 TATAAACCTTTC
99116363 TATAAACCTTTC
1 TATAAACCTTTC
99116375 TAT
1 TAT
99116378 CTGAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAAACCTTTC
Found at i:99123252 original size:19 final size:19
Alignment explanation
Indices: 99123206--99123264 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
99123196 AACAAATTAA
99123206 TAAAAATATATATATAATATTC
1 TAAAAAT-TATA-A-AATATTC
99123228 -ATAAAATTATAAAATATTC
1 TA-AAAATTATAAAATATTC
*
99123247 TAAAAATTTTAAATATAT
1 TAAAAATTATAAA-ATAT
99123265 ATAATTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 17 0.52
20 6 0.18
21 5 0.15
22 5 0.15
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAATTATAAAATATTC
Found at i:99125207 original size:47 final size:47
Alignment explanation
Indices: 99125098--99125208 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
99125088 CCGGGATAAG
*
99125098 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99125145 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99125192 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99125209 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99132461 original size:47 final size:47
Alignment explanation
Indices: 99132352--99132462 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
99132342 CCGGGATAAG
*
99132352 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99132399 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99132446 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99132463 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99135181 original size:23 final size:23
Alignment explanation
Indices: 99135151--99135194 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
99135141 TTTTGAAACA
99135151 AAAAAAAATAGTCAAAAAATTTT
1 AAAAAAAATAGTCAAAAAATTTT
99135174 AAAAAAAATAGTCAAAAAATT
1 AAAAAAAATAGTCAAAAAATT
99135195 AAGGTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
AAAAAAAATAGTCAAAAAATTTT
Found at i:99137135 original size:25 final size:25
Alignment explanation
Indices: 99137101--99137151 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
99137091 TATGAATATG
99137101 AATTGTATTAAACTGAGTTAAATTT
1 AATTGTATTAAACTGAGTTAAATTT
*
99137126 AATTGTATTAAATTGAGTTAAATTT
1 AATTGTATTAAACTGAGTTAAATTT
99137151 A
1 A
99137152 CTCGTATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (25 bp):
AATTGTATTAAACTGAGTTAAATTT
Found at i:99137158 original size:25 final size:25
Alignment explanation
Indices: 99137105--99137158 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
99137095 AATATGAATT
*
99137105 GTATTAAACTGAGTTAAATTTAATT
1 GTATTAAACTGAGTTAAATTTAATC
* *
99137130 GTATTAAATTGAGTTAAATTTACTC
1 GTATTAAACTGAGTTAAATTTAATC
99137155 GTAT
1 GTAT
99137159 AGATCTAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (25 bp):
GTATTAAACTGAGTTAAATTTAATC
Found at i:99137622 original size:26 final size:26
Alignment explanation
Indices: 99137582--99137641 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
99137572 CCCGATATAT
*
99137582 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTAAGCTTCCTAATTAAA
* * *
99137608 GGCTCTTTGTAAGCTTCCTGATTAAT
1 GGCTCTTCGTAAGCTTCCTAATTAAA
99137634 GGCTCTTC
1 GGCTCTTC
99137642 AGAGCTTCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCTAATTAAA
Found at i:99137790 original size:24 final size:24
Alignment explanation
Indices: 99137735--99137793 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
99137725 TATTGGCTCG
*
99137735 TATGAGCGTCCTGGCTATGACTCT
1 TATGAGCTTCCTGGCTATGACTCT
99137759 TATGAGCTTCCTGGCTATGACTCT
1 TATGAGCTTCCTGGCTATGACTCT
99137783 TATGAGCTTCC
1 TATGAGCTTCC
99137794 CGTTATACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
TATGAGCTTCCTGGCTATGACTCT
Found at i:99137831 original size:25 final size:25
Alignment explanation
Indices: 99137803--99137857 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
99137793 CCGTTATACA
*
99137803 GCTCGGATAAGCTTC-CGATTACATG
1 GCTCGCATAAGCTTCTCG-TTACATG
* * *
99137828 GCTCACATGAGCTTCTCGTTATATG
1 GCTCGCATAAGCTTCTCGTTACATG
99137853 GCTCG
1 GCTCG
99137858 AGAGAAGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (25 bp):
GCTCGCATAAGCTTCTCGTTACATG
Found at i:99139344 original size:10 final size:10
Alignment explanation
Indices: 99139329--99139359 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
99139319 AAATATCTAG
99139329 ATTTCTCTTC
1 ATTTCTCTTC
99139339 ATTTCTCTTC
1 ATTTCTCTTC
*
99139349 ATTTATCTTC
1 ATTTCTCTTC
99139359 A
1 A
99139360 ATTCCAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:99148343 original size:11 final size:11
Alignment explanation
Indices: 99148327--99148367 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
99148317 TATACAAGTT
99148327 AAAAAAAATCG
1 AAAAAAAATCG
99148338 AAAAAAAATTC-
1 AAAAAAAA-TCG
99148349 AAAAAAAATCG
1 AAAAAAAATCG
99148360 AAAAAAAA
1 AAAAAAAA
99148368 AAGTGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.07
11 24 0.86
12 2 0.07
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:99155472 original size:46 final size:46
Alignment explanation
Indices: 99155300--99155472 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
99155290 TGTAACCCGC
* * *
99155300 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * * *
99155346 CCATAAGTGAACTCGGACTCAACTCAATGAGCTT-GGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACG-CTCGCAT
* *** * *
99155392 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGAACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
99155439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
99155473 AGATGCCCAA
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
46 68 0.68
47 32 0.32
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:99155478 original size:93 final size:93
Alignment explanation
Indices: 99155308--99155479 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
99155298 GCCCATAAGT
* ** *
99155308 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
99155373 TGAGCTTGGATGCCTAGTTACATCTCTC
66 CGAGCTTAGATGCCTAGTTACATCTCTC
*
99155401 GAACTCGGACTCAACTCAACAAGTTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99155466 CGAG-TTCAGATGCC
66 CGAGCTT-AGATGCC
99155480 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTTAGATGCCTAGTTACATCTCTC
Found at i:99158554 original size:19 final size:19
Alignment explanation
Indices: 99158532--99158571 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99158522 ATTAATTTTG
*
99158532 ATCAAGTAAATTTAAATTA
1 ATCAAGTAAATTAAAATTA
*
99158551 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
99158570 AT
1 AT
99158572 ATGATATTTT
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:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:99159053 original size:11 final size:11
Alignment explanation
Indices: 99158978--99159053 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
99158968 ATTTCAAAAA
*
99158978 TAATATTATTT
1 TAATATTAATT
99158989 TAATAATTTAATAT
1 TAAT-A-TTAAT-T
99159003 TAA-ATTAAATT
1 TAATATT-AATT
*
99159014 TAATATTTATCT
1 TAATATTAAT-T
*
99159026 TAATAGT-ATT
1 TAATATTAATT
99159036 T--TATTAATT
1 TAATATTAATT
99159045 TAATATTAA
1 TAATATTAA
99159054 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 20 0.38
12 15 0.29
13 4 0.08
14 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:99159071 original size:68 final size:72
Alignment explanation
Indices: 99158996--99159133 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
99158986 TTTTAATAAT
* *
99158996 TTAATATTAAATTAAATTTAATATTTA-TCT-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATATTTATTCTGTAGATAAATATTTTATTAATTTAATATTAAAAT
99159057 GATTATC
66 GATTATC
* * *
99159064 TTAATATTAAATTTAATTTAATGTTTATTTTGTAGATAAATATTTTATTAATTTAATATTAAAAT
1 TTAATATTAAATTAAATTTAATATTTATTCTGTAGATAAATATTTTATTAATTTAATATTAAAAT
99159129 GATTA
66 GATTA
99159134 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 25 0.41
69 2 0.03
70 2 0.03
71 2 0.03
72 30 0.49
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.52
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATATTTATTCTGTAGATAAATATTTTATTAATTTAATATTAAAAT
GATTATC
Found at i:99163785 original size:120 final size:118
Alignment explanation
Indices: 99163538--99163787 Score: 265
Period size: 120 Copynumber: 2.1 Consensus size: 118
99163528 GGCTTATTTA
* * * *
99163538 TGAAAGTAATGAATGAGAAAAAGGTTCGAAAGATTAATGAAAGATTAAAGGAACTTTTTTGTTAA
1 TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
* **
99163603 TACATTGAACCTAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTATTTC
66 TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
* * *
99163656 TGAAGGTAATGAATGAGAAAAAAATGGTGT-AAAAGATTAGTGAAAGTTTAAAGGAA-ATATTTG
1 TGAAAGTAATGAATGAG--AAAAA-GGT-TCAAAAGATTAATGAAAGATTAAAGGAACATATTTG
* * * * * * *
99163719 CTAATACA-TGAAACATAAAGATGGAATCAGTTAG-TAATTTTCTTGTAGGCTTGCCTG
62 CTAATACATTG-AACATAAAGATAGAACCAATTAGCT-ATTTACTTGCAGGCTTACCTC
99163776 TGAAAGTAATGA
1 TGAAAGTAATGA
99163788 TTTTGGATGA
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
118 16 0.15
119 3 0.03
120 62 0.57
121 26 0.24
122 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (118 bp):
TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
Found at i:99166619 original size:31 final size:31
Alignment explanation
Indices: 99166584--99166652 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
99166574 ACTTTCAAAA
99166584 GTTACATAATAGTAACTAATGTTATCAAATT
1 GTTACATAATAGTAACTAATGTTATCAAATT
** * * *
99166615 GTTACATGGTAGTCATTAATGTTATCAACTT
1 GTTACATAATAGTAACTAATGTTATCAAATT
*
99166646 GTAACAT
1 GTTACAT
99166653 TTTCATCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (31 bp):
GTTACATAATAGTAACTAATGTTATCAAATT
Found at i:99167645 original size:21 final size:21
Alignment explanation
Indices: 99167620--99167665 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
99167610 TCTCTCTTTA
99167620 TTTTA-TAATAATTTTTAATTT
1 TTTTAGTAATAA-TTTTAATTT
**
99167641 TTTTAGTTTTAATTTTAATTT
1 TTTTAGTAATAATTTTAATTT
99167662 TTTT
1 TTTT
99167666 TAGATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAGTAATAATTTTAATTT
Found at i:99167666 original size:22 final size:21
Alignment explanation
Indices: 99167632--99167673 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
99167622 TTATAATAAT
*
99167632 TTTTAATTTTTTTAGTTTTAA
1 TTTTAATTTTTTTAGATTTAA
99167653 TTTTAATTTTTTTTAGATTTA
1 TTTTAA-TTTTTTTAGATTTA
99167674 TATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTAATTTTTTTAGATTTAA
Found at i:99175610 original size:26 final size:26
Alignment explanation
Indices: 99175572--99175634 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
99175562 CCTATTTATT
99175572 AGTCACATTATTCAATGTGACCCAAA
1 AGTCACATTATTCAATGTGACCCAAA
*
99175598 ATTCACATTATTCAATGTGACCCAAA
1 AGTCACATTATTCAATGTGACCCAAA
99175624 AGTCACATTAT
1 AGTCACATTAT
99175635 GAAAATTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (26 bp):
AGTCACATTATTCAATGTGACCCAAA
Found at i:99177152 original size:54 final size:53
Alignment explanation
Indices: 99177068--99177229 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 53
99177058 CCATGGCAAC
* * * *
99177068 ATGTGATATGTGATTTTCATATAAGGCCATAGCTGGGTTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
* * * * *
99177121 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGCTATGTCATCAGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
* * * *
99177175 ATATGATTATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
99177228 AT
1 AT
99177230 ATGTGCCACT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 41 0.46
54 48 0.53
55 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
Found at i:99177211 original size:53 final size:47
Alignment explanation
Indices: 99177140--99177281 Score: 149
Period size: 47 Copynumber: 2.9 Consensus size: 47
99177130 TGTGATTTCC
* * * **
99177140 GTATAAGACCATAGCTGGGCTATGTCATCAGAGAGATATGATTATGTGCTTCT
1 GTATAAGACCATATCTGGGATATGGCATC---G-G-TATGA-TATGTGCCACT
*
99177193 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCCACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGCCACT
** *
99177240 GTATAAGACCATATCTGGGATATGGCATTAGTGTGATATGTG
1 GTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTG
99177282 ATCCGTGTGC
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
47 49 0.60
48 4 0.05
49 1 0.01
50 1 0.01
53 26 0.32
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGCCACT
Found at i:99177251 original size:47 final size:47
Alignment explanation
Indices: 99177182--99177281 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
99177172 GAGATATGAT
** *
99177182 TATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTGA
1 TATGTGCCACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGA
*
99177229 TATGTGCCACTGTATAAGACCATATCTGGGATATGGCATTAGTGTGA
1 TATGTGCCACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGA
99177276 TATGTG
1 TATGTG
99177282 ATCCGTGTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (47 bp):
TATGTGCCACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGA
Found at i:99179200 original size:6 final size:6
Alignment explanation
Indices: 99179191--99179228 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
99179181 CAGCTACTGC
*
99179191 TATTGT TATTGT TATTGT TATTGT TACTGT TATTGT TA
1 TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TA
99179229 CCGTTACGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.16, T:0.63
Consensus pattern (6 bp):
TATTGT
Found at i:99179229 original size:12 final size:12
Alignment explanation
Indices: 99179194--99179234 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
99179184 CTACTGCTAT
*
99179194 TGTTATTGTTAT
1 TGTTATTGTTAC
99179206 TGTTATTGTTAC
1 TGTTATTGTTAC
99179218 TGTTATTGTTAC
1 TGTTATTGTTAC
*
99179230 CGTTA
1 TGTTA
99179235 CGGTGTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (12 bp):
TGTTATTGTTAC
Found at i:99179234 original size:18 final size:18
Alignment explanation
Indices: 99179195--99179235 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
99179185 TACTGCTATT
* **
99179195 GTTATTGTTATTGTTATT
1 GTTACTGTTATTGTTACC
99179213 GTTACTGTTATTGTTACC
1 GTTACTGTTATTGTTACC
99179231 GTTAC
1 GTTAC
99179236 GGTGTATTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.56
Consensus pattern (18 bp):
GTTACTGTTATTGTTACC
Found at i:99179366 original size:18 final size:18
Alignment explanation
Indices: 99179343--99179386 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
99179333 TAAATAAAGG
*
99179343 TACTGAATAATTGACTGC
1 TACTGAATAATTAACTGC
* *
99179361 TACTGAATATTTAACTGT
1 TACTGAATAATTAACTGC
99179379 TACTGAAT
1 TACTGAAT
99179387 TACTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTAACTGC
Found at i:99183269 original size:21 final size:21
Alignment explanation
Indices: 99183243--99183346 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
99183233 TGATCAGTAT
*
99183243 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
99183264 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
99183285 ACGACACACAAAGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
99183306 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
99183328 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
99183347 GATCAGTAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 51 0.76
22 1 0.01
23 15 0.22
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:99183333 original size:44 final size:42
Alignment explanation
Indices: 99183241--99183349 Score: 173
Period size: 42 Copynumber: 2.5 Consensus size: 42
99183231 CCTGATCAGT
* *
99183241 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
*
99183283 ATACGACACACAAAGTGCCTGATACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
99183325 AAATACGACACATAAAGTGCCTGAT
1 --ATACGACACATAAAGTGCCTGAT
99183350 CAGTAAAGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 39 0.64
44 22 0.36
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
Found at i:99184818 original size:16 final size:17
Alignment explanation
Indices: 99184783--99184818 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
99184773 CCTAATTCTC
99184783 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
99184799 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
99184814 CCTTC
1 CCTTC
99184819 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:99194896 original size:31 final size:34
Alignment explanation
Indices: 99194861--99194931 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
99194851 CAAAAGAAAT
*
99194861 CAGACAAA-A-AAAGAC-GACGTGCTACCGTGAG
1 CAGACAAATAGAAAGACAAACGTGCTACCGTGAG
* * *
99194892 CAGACAAATAGAGATACAAACGTGCTAGCGTGAG
1 CAGACAAATAGAAAGACAAACGTGCTACCGTGAG
99194926 CAGACA
1 CAGACA
99194932 TCTATGCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.24
32 1 0.03
33 4 0.12
34 20 0.61
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.11
Consensus pattern (34 bp):
CAGACAAATAGAAAGACAAACGTGCTACCGTGAG
Found at i:99216570 original size:23 final size:23
Alignment explanation
Indices: 99216543--99216586 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
99216533 TCACCAATAT
*
99216543 CGCAACACAACTGCTAATAGTAA
1 CGCAACAAAACTGCTAATAGTAA
99216566 CGCAACAAAACTGCTAATAGT
1 CGCAACAAAACTGCTAATAGT
99216587 GGTAAACGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (23 bp):
CGCAACAAAACTGCTAATAGTAA
Found at i:99217739 original size:25 final size:24
Alignment explanation
Indices: 99217651--99217793 Score: 90
Period size: 25 Copynumber: 5.8 Consensus size: 24
99217641 GGCTCTTTGT
*
99217651 GAGCTTCCCGATTAATGGCTCTCCA
1 GAGCTTCCCG-TTAATGGCTTTCCA
* * * ** **
99217676 GAGCTCCCCGATATTGGCTCACTT
1 GAGCTTCCCGTTAATGGCTTTCCA
* * *
99217700 GAAACTTTCTGTTAATGGCTTTCCA
1 G-AGCTTCCCGTTAATGGCTTTCCA
* *
99217725 GAGCTTCCCGATTAATGACTTTTCA
1 GAGCTTCCCG-TTAATGGCTTTCCA
* * *
99217750 GAGCTACCCGTTATTGGC-TTACA
1 GAGCTTCCCGTTAATGGCTTTCCA
99217773 TGAGCTTCCCGTTATATGGCT
1 -GAGCTTCCCGTTA-ATGGCT
99217794 CGAAAGAGCT
Statistics
Matches: 86, Mismatches: 27, Indels: 9
0.70 0.22 0.07
Matches are distributed among these distances:
23 4 0.05
24 34 0.40
25 48 0.56
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTTTCCA
Found at i:99217783 original size:24 final size:25
Alignment explanation
Indices: 99217749--99217810 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
99217739 ATGACTTTTC
* *
99217749 AGAGCTACCCGTTAT-TGGCT-TACA
1 AGAGCTTCCCGTTATATGGCTCGA-A
*
99217773 TGAGCTTCCCGTTATATGGCTCGAA
1 AGAGCTTCCCGTTATATGGCTCGAA
99217798 AGAGCTTCCCGTT
1 AGAGCTTCCCGTT
99217811 TAAATGCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.41
25 18 0.56
26 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (25 bp):
AGAGCTTCCCGTTATATGGCTCGAA
Found at i:99217792 original size:74 final size:74
Alignment explanation
Indices: 99217651--99217793 Score: 180
Period size: 74 Copynumber: 1.9 Consensus size: 74
99217641 GGCTCTTTGT
* * * * *
99217651 GAGCTTCCCGATTAATGGCTCTCCAGAGCTCCCCGATATTGGCTCACTTGAAACTTTCTGTTAAT
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
99217716 GGCTTTCCA
66 GGCTTTCCA
* * * * *
99217725 GAGCTTCCCGATTAATGACTTTTCAGAGCTACCCGTTATTGGCTTACATG-AGCTTCCCGTTATA
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTA-A
99217789 TGGCT
65 TGGCT
99217794 CGAAAGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 9 0.16
74 49 0.84
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (74 bp):
GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
GGCTTTCCA
Found at i:99217802 original size:74 final size:74
Alignment explanation
Indices: 99217651--99217813 Score: 175
Period size: 74 Copynumber: 2.2 Consensus size: 74
99217641 GGCTCTTTGT
* * * * *
99217651 GAGCTTCCCGATTAATGGCTCTCCAGAGCTCCCCGATATTGGCTCACTTGAAACTTTCTGTTAAT
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
****
99217716 GGCTTTCCA
66 GGCTCGAAA
* * * * *
99217725 GAGCTTCCCGATTAATGACTTTTCAGAGCTACCCGTTATTGGCTTACATG-AGCTTCCCGTTATA
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTA-A
99217789 TGGCTCGAAA
65 TGGCTCGAAA
*
99217799 GAGCTTCCCGTTTAA
1 GAGCTTCCCGATTAA
99217814 ATGCTCAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
73 9 0.12
74 64 0.88
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (74 bp):
GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCGTTAAT
GGCTCGAAA
Found at i:99217831 original size:25 final size:25
Alignment explanation
Indices: 99217772--99217831 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
99217762 ATTGGCTTAC
*
99217772 ATGAGCTTCCCGTTATATGGCTCGA
1 ATGAGCTTCCCGTTAAATGGCTCGA
*
99217797 AAGAGCTTCCCGTTTAAAT-GCTC-A
1 ATGAGCTTCCCG-TTAAATGGCTCGA
99217821 ATGAGCATTCC
1 ATGAGC-TTCC
99217832 TGAATACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
25 19 0.63
26 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTAAATGGCTCGA
Found at i:99225410 original size:18 final size:18
Alignment explanation
Indices: 99225387--99225429 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
99225377 ATTCAAGGTG
99225387 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
99225405 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
99225423 TAATTAA
1 TAATTAA
99225430 AAATTATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:99227520 original size:2 final size:2
Alignment explanation
Indices: 99227513--99227547 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99227503 ATCATTCGAT
99227513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99227548 CATTCTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99227803 original size:45 final size:43
Alignment explanation
Indices: 99227753--99227851 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
99227743 GTAGCAGTAG
* * *
99227753 CAGTAACAGTAATAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAATATTC--CACACAAAGTGTC-GAATCGGTAA
** *
99227798 CAGTAATGGTAACAATATTCGACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAATATTCCACACAAAGTGTCGAATCGGTAA
99227841 CAGTAACAGTA
1 CAGTAACAGTA
99227852 GTCGGCACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
43 28 0.62
44 1 0.02
45 16 0.36
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (43 bp):
CAGTAACAGTAACAATATTCCACACAAAGTGTCGAATCGGTAA
Found at i:99228927 original size:5 final size:5
Alignment explanation
Indices: 99228917--99228969 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
99228907 TGTTTCTTTT
99228917 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
99228967 ATA
1 ATA
99228970 ATATACTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:99229472 original size:33 final size:33
Alignment explanation
Indices: 99229388--99229472 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 33
99229378 TACACAGCAT
* * * * *
99229388 TGCCATGGCCCAACCATGGTCTTACATTCGTAG
1 TGCCATAGCCCAACTATGGCCTTACATTCATAA
* **
99229421 TGCCATAACCCAGTTATGGCCTTATCA-TCATAA
1 TGCCATAGCCCAACTATGGCCTTA-CATTCATAA
99229454 TGCCATAGCCCAACTATGG
1 TGCCATAGCCCAACTATGG
99229473 TCTAACATAT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
33 38 0.95
34 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGCCTTACATTCATAA
Found at i:99229657 original size:117 final size:117
Alignment explanation
Indices: 99229451--99229683 Score: 360
Period size: 117 Copynumber: 2.0 Consensus size: 117
99229441 CTTATCATCA
* *
99229451 TAATGCCATAGCCCAACTATGGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
1 TAATGCCATAACCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
* *
99229516 TCAAAGTGTCATAACCTAGTTATGGT-TATTTCCGTCAATTCATCCTTTACAT
66 TCAAAGTGCCATAACCTAGTTATGGTCT-TATCCGTCAATTCATCCTTTACAT
* *
99229568 TAATGCCATAACCCAACTATAGTCTTACATATAAATACTGCCATGGTCCAACCATGGTCTTACAT
1 TAATGCCATAACCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
*** *
99229633 TTTTAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCCTCCTTTACA
66 TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACA
99229684 CTGAACAATT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
117 104 0.99
118 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (117 bp):
TAATGCCATAACCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACAT
Found at i:99234505 original size:3 final size:3
Alignment explanation
Indices: 99234497--99234557 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
99234487 GAAAAATAAA
* * *
99234497 AAG AAG AAG AAG AAG -AG GAG AAG AAG AA- AA- AAA AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
99234542 AAG AAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG A
99234558 GGAATTGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:99243542 original size:29 final size:29
Alignment explanation
Indices: 99243494--99243550 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
99243484 AAAATGGATC
99243494 AAATCAAAATTTTAGGTATAAAATTACACA
1 AAATCAAAATTTTA-GTATAAAATTACACA
*
99243524 AAATCAAAATTTTTA-TATAGAATTACA
1 AAATCAAAA-TTTTAGTATAAAATTACA
99243551 TGTTAAACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTTTAGTATAAAATTACACA
Found at i:99244874 original size:12 final size:14
Alignment explanation
Indices: 99244848--99244881 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
99244838 AAACATTGAT
99244848 AATATAAATTAAAA
1 AATATAAATTAAAA
99244862 AATA-AAATTAAAA
1 AATATAAATTAAAA
99244875 AAT-TAAA
1 AATATAAA
99244882 AGTATAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATAAATTAAAA
Found at i:99246181 original size:18 final size:18
Alignment explanation
Indices: 99246158--99246200 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
99246148 ATTTAAGGTG
99246158 TAATTAATTTAAACTT-TT
1 TAATTAA-TTAAACTTATT
*
99246176 TAATTAATTAAATTTATT
1 TAATTAATTAAACTTATT
99246194 TAATTAA
1 TAATTAA
99246201 AAATCTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAACTTATT
Found at i:99250883 original size:3 final size:3
Alignment explanation
Indices: 99250858--99250944 Score: 50
Period size: 3 Copynumber: 29.0 Consensus size: 3
99250848 CATGATGTTT
* * ** *
99250858 ATG ATG AT- ATTG ATG CTG CTG ATG ATG ATG ACA ACG ATG ATG ATG
1 ATG ATG ATG A-TG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
** * * * * *
99250903 ATG ACA ATG ATA ATG AAG ATG ATG ACG ACG ACG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
99250945 GCAGTGAAGA
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.97
4 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:99250898 original size:18 final size:18
Alignment explanation
Indices: 99250877--99250944 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
99250867 TTGATGCTGC
99250877 TGATGATGATGACAACGA
1 TGATGATGATGACAACGA
*
99250895 TGATGATGATGACAATGATAA
1 TGATGATGATGACAACG---A
* *
99250916 TGAAGATGATGACGACGA
1 TGATGATGATGACAACGA
*
99250934 CGATGATGATG
1 TGATGATGATG
99250945 GCAGTGAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 26 0.63
21 15 0.37
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (18 bp):
TGATGATGATGACAACGA
Found at i:99254476 original size:22 final size:22
Alignment explanation
Indices: 99254448--99254511 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 22
99254438 AAAACATAAT
99254448 ATAATATTTATCATAAAGGTAA
1 ATAATATTTATCATAAAGGTAA
* * *
99254470 ATAATATTTAATTAAAACAAAGTTAA
1 ATAATATTT-A-T--CATAAAGGTAA
99254496 ATAATATTTATCATAA
1 ATAATATTTATCATAA
99254512 TATTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 2 0.06
25 1 0.03
26 17 0.52
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATATTTATCATAAAGGTAA
Found at i:99255158 original size:26 final size:27
Alignment explanation
Indices: 99255118--99255180 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 27
99255108 AAAAAATACC
99255118 AATAATATATAAAC-ATAAA-AAATATTAA
1 AATAA-ATATAAACAATAAATAAATA--AA
99255146 AATAAATAT-AACAATAAATAAATAAA
1 AATAAATATAAACAATAAATAAATAAA
99255172 AATAAATAT
1 AATAAATAT
99255181 GTTAAAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.42
27 9 0.27
28 10 0.30
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (27 bp):
AATAAATATAAACAATAAATAAATAAA
Found at i:99258381 original size:21 final size:22
Alignment explanation
Indices: 99258345--99258405 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
99258335 AAATAAGTAT
99258345 ATATCAAAATTTTTTTAAGACA
1 ATATCAAAATTTTTTTAAGACA
99258367 ATATCAAAATTTTTTTAAGACA
1 ATATCAAAATTTTTTTAAGACA
99258389 ATA-C-AAATTCTTTTTAA
1 ATATCAAAATT-TTTTTAA
99258406 TGATTTACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.13
21 8 0.21
22 25 0.66
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATCAAAATTTTTTTAAGACA
Found at i:99259558 original size:21 final size:21
Alignment explanation
Indices: 99259534--99259578 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
99259524 AGTCATGTTA
99259534 TTAATTTTT-TATTTTAAAAAT
1 TTAATTTTTATATTTT-AAAAT
99259555 TTAATTTTTATATTTTAAAAT
1 TTAATTTTTATATTTTAAAAT
99259576 TTA
1 TTA
99259579 GGTTGACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTTTATATTTTAAAAT
Found at i:99260913 original size:14 final size:14
Alignment explanation
Indices: 99260894--99260927 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
99260884 ATGCTAACTC
99260894 ATAATTGTTGATAA
1 ATAATTGTTGATAA
99260908 ATAATTGTTGATAA
1 ATAATTGTTGATAA
99260922 ATAATT
1 ATAATT
99260928 ACAGTGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
ATAATTGTTGATAA
Found at i:99261611 original size:3 final size:3
Alignment explanation
Indices: 99261603--99261633 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99261593 CAATTTTGTT
99261603 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
99261634 GAACGTACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:99263413 original size:8 final size:8
Alignment explanation
Indices: 99263400--99263435 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
99263390 CAACCTGGTT
99263400 TTTTTTTC
1 TTTTTTTC
99263408 TTTTTTTC
1 TTTTTTTC
99263416 -TTTTTTC
1 TTTTTTTC
99263423 TTTTTTTGC
1 TTTTTTT-C
99263432 TTTT
1 TTTT
99263436 CATCCTTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 14 0.54
9 5 0.19
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:99263421 original size:15 final size:16
Alignment explanation
Indices: 99263401--99263435 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
99263391 AACCTGGTTT
99263401 TTTTTTCTTTTTTT-C
1 TTTTTTCTTTTTTTGC
99263416 TTTTTTCTTTTTTTGC
1 TTTTTTCTTTTTTTGC
99263432 TTTT
1 TTTT
99263436 CATCCTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTTTTGC
Found at i:99264246 original size:42 final size:42
Alignment explanation
Indices: 99264188--99264347 Score: 168
Period size: 42 Copynumber: 3.9 Consensus size: 42
99264178 GGCGTTTATT
99264188 TAAAAAA-CGTCGCTAAAAGCCATGACTTTTAGCGGAGTTTG
1 TAAAAAAGCGTCGCTAAAAGCCATGACTTTTAGCGGAGTTTG
* * * *
99264229 TAAAAAAGCGTGGCTAAAAGTCATGGCTTTTAGTGGCA-TTTG
1 TAAAAAAGCGTCGCTAAAAGCCATGACTTTTAGCGG-AGTTTG
* * * * *
99264271 CTGAGAAAGCGCCGCTAAAAGTCATGGCTTTTAGC-GATGTTTG
1 -TAAAAAAGCGTCGCTAAAAGCCATGACTTTTAGCGGA-GTTTG
*
99264314 CAAAAAAGC--CGCTAAAAGCCATGACTTTTAGCGG
1 TAAAAAAGCGTCGCTAAAAGCCATGACTTTTAGCGG
99264348 CATTTTTCCC
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
40 21 0.21
41 9 0.09
42 35 0.35
43 34 0.34
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
TAAAAAAGCGTCGCTAAAAGCCATGACTTTTAGCGGAGTTTG
Found at i:99264287 original size:85 final size:83
Alignment explanation
Indices: 99264198--99264352 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 83
99264188 TAAAAAACGT
* * * *
99264198 CGCTAAAAGCCATGACTTTTAGCGGA-GTTTGTAAAAAAGCGTGGCTAAAAGTCATGGCTTTTAG
1 CGCTAAAAGCCATGACTTTTAGC-GATGTTTGCAAAAAAGC--CGCTAAAAGCCATGACTTTTAG
*
99264262 TGGCATTTGCTGAGAAAGCGC
63 CGGCATTTGCTGAGAAAGCGC
* *
99264283 CGCTAAAAGTCATGGCTTTTAGCGATGTTTGCAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGG
1 CGCTAAAAGCCATGACTTTTAGCGATGTTTGCAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGG
99264348 CATTT
66 CATTT
99264353 TTCCCACAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 26 0.42
84 2 0.03
85 34 0.55
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (83 bp):
CGCTAAAAGCCATGACTTTTAGCGATGTTTGCAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGG
CATTTGCTGAGAAAGCGC
Found at i:99264290 original size:43 final size:42
Alignment explanation
Indices: 99264188--99264347 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
99264178 GGCGTTTATT
* * *
99264188 TAAAAAA-CGTCGCTAAAAGCCATGACTTTTAGCGGAGTTTG
1 TAAAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGAGTTTG
** *
99264229 TAAAAAAGCGTGGCTAAAAGTCATGGCTTTTAGTGGCA-TTTG
1 TAAAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGG-AGTTTG
* *
99264271 CTGAGAAAGCGCCGCTAAAAGTCATGGCTTTTAGC-GATGTTTG
1 -TAAAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGA-GTTTG
* * *
99264314 CAAAAAA--GCCGCTAAAAGCCATGACTTTTAGCGG
1 TAAAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGG
99264348 CATTTTTCCC
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
40 23 0.23
41 9 0.09
42 33 0.33
43 34 0.34
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
TAAAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGAGTTTG
Found at i:99264479 original size:31 final size:33
Alignment explanation
Indices: 99264426--99264506 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 33
99264416 TTCATGCATT
* *
99264426 AAATCCAACCAAATACAACAAATATAGCA-T-A
1 AAATACAACCAAAAACAACAAATATAGCATTAA
* * * *
99264457 AAATGCAGCCAAAAACAGCAAATTTAGCATTAA
1 AAATACAACCAAAAACAACAAATATAGCATTAA
99264490 AAATACAACCAAAAACA
1 AAATACAACCAAAAACA
99264507 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 24 0.59
32 1 0.02
33 16 0.39
ACGTcount: A:0.58, C:0.21, G:0.06, T:0.15
Consensus pattern (33 bp):
AAATACAACCAAAAACAACAAATATAGCATTAA
Found at i:99264766 original size:21 final size:21
Alignment explanation
Indices: 99264741--99264795 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
99264731 GCTGCCATTG
**
99264741 CTGCTGCCTCTGCCTTTCTCGT
1 CTGCTGCCTCTGCCTCCCTC-T
**
99264763 -TGCTGCAGCTGCCTCCCTCT
1 CTGCTGCCTCTGCCTCCCTCT
99264783 CTGCTGCCTCTGC
1 CTGCTGCCTCTGC
99264796 TCTAAGTTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.02, C:0.44, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTGCCTCTGCCTCCCTCT
Found at i:99265231 original size:13 final size:14
Alignment explanation
Indices: 99265206--99265234 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99265196 TGATGAATTG
99265206 AATTAAACAATTAT
1 AATTAAACAATTAT
99265220 AATTAAAC-ATTAT
1 AATTAAACAATTAT
99265233 AA
1 AA
99265235 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:99269349 original size:35 final size:35
Alignment explanation
Indices: 99269322--99269487 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
99269312 CATGGCAAAG
*
99269322 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
99269357 TGTGAAATGTAGGTACGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
99269392 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
99269432 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
99269467 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
99269488 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 77 0.69
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:99269441 original size:75 final size:75
Alignment explanation
Indices: 99269322--99269492 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
99269312 CATGGCAAAG
** *
99269322 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTACGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTACGGCATT-TC
*
99269381 CCATACTGAGC
65 CCATACCGAGC
*
99269392 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTACGGCATTTCC
*
99269457 CATACCGAGT
66 CATACCGAGC
**
99269467 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
99269493 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTACGGCATTTCC
CATACCGAGC
Found at i:99272405 original size:9 final size:9
Alignment explanation
Indices: 99272391--99272444 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
99272381 TATTTATGTA
99272391 TTATGTAAG
1 TTATGTAAG
*
99272400 TTATGTAAA
1 TTATGTAAG
99272409 TTATGTAAG
1 TTATGTAAG
* * **
99272418 TTGTTTATC
1 TTATGTAAG
*
99272427 TTATGTAAA
1 TTATGTAAG
99272436 TTATGTAAG
1 TTATGTAAG
99272445 ATATAATATA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:99272413 original size:18 final size:18
Alignment explanation
Indices: 99272390--99272443 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
99272380 ATATTTATGT
99272390 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
99272408 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
99272426 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
99272444 GATATAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:99274036 original size:24 final size:24
Alignment explanation
Indices: 99274009--99274075 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
99273999 TTCCTGATAT
99274009 TGGCTCGTATGAGCTTCCCGTTA-A
1 TGGCTC-TATGAGCTTCCCGTTACA
* *
99274033 TGGCTCTCTGGATCTTCCCGTTACA
1 TGGCTCTAT-GAGCTTCCCGTTACA
*
99274058 TGGCTCACATGAGCTTCC
1 TGGCTC-TATGAGCTTCC
99274076 TATTTATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 14 0.40
26 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGCTCTATGAGCTTCCCGTTACA
Found at i:99274074 original size:25 final size:24
Alignment explanation
Indices: 99274017--99274075 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
99274007 ATTGGCTCGT
*
99274017 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTCCCGTTAATGGCTCAC
*
99274041 -TGGATCTTCCCGTTACATGGCTCAC
1 AT-GAGCTTCCCGTTA-ATGGCTCAC
99274066 ATGAGCTTCC
1 ATGAGCTTCC
99274076 TATTTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 12 0.41
25 15 0.52
26 1 0.03
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCGTTAATGGCTCAC
Found at i:99289507 original size:5 final size:5
Alignment explanation
Indices: 99289493--99289529 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
99289483 TATTTCCAAA
*
99289493 AAAAT AAAA- ATAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
99289530 GAACATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 6 0.21
5 23 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:99309192 original size:17 final size:18
Alignment explanation
Indices: 99309160--99309195 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
99309150 AAAATCCTAA
99309160 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
99309179 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
99309196 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:99309197 original size:25 final size:25
Alignment explanation
Indices: 99309169--99309216 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
99309159 ACTTTTTCTC
* * *
99309169 CTTTCTTTCTCTTTTTCTTTTCTTT
1 CTTTCCTTCTCTATTTCGTTTCTTT
99309194 CTTTCCTTCTCTATTTCGTTTCT
1 CTTTCCTTCTCTATTTCGTTTCT
99309217 GCTTTGGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTCCTTCTCTATTTCGTTTCTTT
Found at i:99309215 original size:21 final size:21
Alignment explanation
Indices: 99309169--99309216 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
99309159 ACTTTTTCTC
*
99309169 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
99309190 CTTTCTTTC-C-TTCTCTATTT
1 CTTTCTTTCTCTTTCTCT-TTT
99309210 CGTTTCT
1 C-TTTCT
99309217 GCTTTGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:99310189 original size:2 final size:2
Alignment explanation
Indices: 99310182--99310211 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99310172 TCTATTCTTT
99310182 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99310212 GATAATTCTA
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):
TA
Found at i:99311287 original size:6 final size:6
Alignment explanation
Indices: 99311278--99311311 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
99311268 ATAATAATAA
99311278 TATTTT TATTTT TATTTT TATTATGT TATTTT TA
1 TATTTT TATTTT TATTTT TATT-T-T TATTTT TA
99311312 ATGTAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Done.