Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 165 of 425
Found at i:50071631 original size:18 final size:18
Alignment explanation
Indices: 50071608--50071643 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50071598 ATTTTAATAG
50071608 TGTTAGTCAATTACCTAA
1 TGTTAGTCAATTACCTAA
50071626 TGTTAGTCAATTACCTAA
1 TGTTAGTCAATTACCTAA
50071644 AAAAAGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
TGTTAGTCAATTACCTAA
Found at i:50072632 original size:25 final size:27
Alignment explanation
Indices: 50072575--50072633 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
50072565 ATGAATTTGA
* *
50072575 TAAAAATAGAAAATAAATATTATATTT
1 TAAAAATAGAAAACAAATAATATATTT
50072602 TAAAAAT-GAAAACAAA-AATATATTT
1 TAAAAATAGAAAACAAATAATATATTT
*
50072627 TCAAAAT
1 TAAAAAT
50072634 TCAAATAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.48
26 8 0.28
27 7 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
TAAAAATAGAAAACAAATAATATATTT
Found at i:50077670 original size:68 final size:69
Alignment explanation
Indices: 50077579--50077714 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 69
50077569 TTTTAATAGA
* *
50077579 TTTAATATTAAATTAAATTTAATACTTATTTTAAT-AGTATGT-TATTAATTTAATATTAAAGTG
1 TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTAT-TATATTAATTTAATATTAAAGTG
50077642 ATTAT
65 ATTAT
* * *
50077647 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
50077712 TTA
66 TTA
50077715 AGATTAAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
68 31 0.51
69 30 0.49
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (69 bp):
TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
TTAT
Found at i:50078600 original size:23 final size:21
Alignment explanation
Indices: 50078564--50078607 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
50078554 TAACAACTAT
50078564 GAAACTAAATAAAACCATAAA
1 GAAACTAAATAAAACCATAAA
*
50078585 GAAACATAAACTAAAACCCTAAA
1 GAAAC-TAAA-TAAAACCATAAA
50078608 ACTATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.14
Consensus pattern (21 bp):
GAAACTAAATAAAACCATAAA
Found at i:50081698 original size:50 final size:52
Alignment explanation
Indices: 50081642--50081760 Score: 154
Period size: 50 Copynumber: 2.3 Consensus size: 52
50081632 TTAATAAAGT
* *
50081642 CATGCATTATGTAACT-CTCATGTTAGTT-AAGTTTGCACCA-TAAATTATGA
1 CATGCATTATGTAACTCCT-ATGTTAGTTAAAATTTGCACCATTAAATTAAGA
* * *
50081692 TATGCATTATGTAACTCCTATGTTAGTTAAAATTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCTATGTTAGTTAAAATTTGCACCATTAAATTAAGA
*
50081744 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
50081761 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 24 0.41
51 12 0.20
52 23 0.39
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCTATGTTAGTTAAAATTTGCACCATTAAATTAAGA
Found at i:50083825 original size:10 final size:10
Alignment explanation
Indices: 50083798--50083857 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
50083788 TTAAATTCTA
50083798 AAAGATAAAT
1 AAAGATAAAT
50083808 ACAA-ATAAAT
1 A-AAGATAAAT
* *
50083818 AAGGATAATT
1 AAAGATAAAT
*
50083828 AAAGATAATT
1 AAAGATAAAT
50083838 AAAGATAAAT
1 AAAGATAAAT
50083848 AGAA-ATAAAT
1 A-AAGATAAAT
50083858 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.02
10 38 0.88
11 4 0.09
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:50083907 original size:14 final size:13
Alignment explanation
Indices: 50083871--50083908 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
50083861 AAATTTAAAT
50083871 CTAAATAATTATC
1 CTAAATAATTATC
*
50083884 CTTAATAATTATC
1 CTAAATAATTATC
50083897 CTAATATAATTA
1 CTAA-ATAATTA
50083909 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:50084636 original size:96 final size:97
Alignment explanation
Indices: 50084517--50084700 Score: 262
Period size: 96 Copynumber: 1.9 Consensus size: 97
50084507 ATTTAATTTA
* *
50084517 TTTATTTTCACTTAGGAATATATTGAACCTTTTGACACGAAGAAAGATGACAGCCAAGCACCCCA
1 TTTATTTTCACTTAAGAACATATTGAACCTTTTGACACGAAGAAAGATGACAGCCAAGCACCCCA
* * *
50084582 CCCCGGTTGCTTAGCCCAACATACTCCTAATT
66 CCCCGATTACTCAGCCCAACATACTCCTAATT
* ** * *
50084614 TTTATTTT-TCTTAAGAACATATTGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCAGCCCA
1 TTTATTTTCACTTAAGAACATATTGAACCTTTTGACACGAAGAAAGATGACAGCCAAGCACCCCA
*
50084678 CCCCGATTACTCAGCCTAACATA
66 CCCCGATTACTCAGCCCAACATA
50084701 TTCTTAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
96 68 0.89
97 8 0.11
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTCACTTAAGAACATATTGAACCTTTTGACACGAAGAAAGATGACAGCCAAGCACCCCA
CCCCGATTACTCAGCCCAACATACTCCTAATT
Found at i:50087359 original size:5 final size:5
Alignment explanation
Indices: 50087349--50087423 Score: 88
Period size: 5 Copynumber: 15.8 Consensus size: 5
50087339 TCAACATAAA
*
50087349 AAAAT AAAAT AAAAT AAAAT --AAT AAAAT AAAGT AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
50087396 -AAAT AAAAT AAAAT -TAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
50087424 ATTGGGTTGC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
3 3 0.05
4 11 0.18
5 44 0.72
6 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:50087367 original size:18 final size:19
Alignment explanation
Indices: 50087349--50087423 Score: 91
Period size: 18 Copynumber: 3.9 Consensus size: 19
50087339 TCAACATAAA
50087349 AAAATAAAATAAAATAAAAT
1 AAAAT-AAATAAAATAAAAT
* *
50087369 AATA-AAATAAAGTAAAAT
1 AAAATAAATAAAATAAAAT
50087387 AAAATAAAT-AAATAAAAT
1 AAAATAAATAAAATAAAAT
*
50087405 AAAATTAATAAAAATAAAA
1 AAAATAAAT-AAAATAAAA
50087424 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
18 32 0.68
19 4 0.09
20 11 0.23
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.21
Consensus pattern (19 bp):
AAAATAAATAAAATAAAAT
Found at i:50087370 original size:23 final size:23
Alignment explanation
Indices: 50087344--50087418 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
50087334 TTTTATCAAC
50087344 ATAAAAAAATAAAATAAAATAAA
1 ATAAAAAAATAAAATAAAATAAA
* *
50087367 ATAATAAAATAAAGTAAAATAAA
1 ATAAAAAAATAAAATAAAATAAA
* *
50087390 ATAAATAAATAAAATAAAAT-TA
1 ATAAAAAAATAAAATAAAATAAA
50087412 ATAAAAA
1 ATAAAAA
50087419 TAAAAATTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 7 0.16
23 38 0.84
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.21
Consensus pattern (23 bp):
ATAAAAAAATAAAATAAAATAAA
Found at i:50087420 original size:28 final size:28
Alignment explanation
Indices: 50087353--50087407 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
50087343 CATAAAAAAA
50087353 TAAAATAAAATAAAATAATAAAATAAAG
1 TAAAATAAAATAAAATAATAAAATAAAG
50087381 TAAAATAAAAT-AAATAAATAAAATAAA
1 TAAAATAAAATAAAAT-AATAAAATAAA
50087408 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (28 bp):
TAAAATAAAATAAAATAATAAAATAAAG
Found at i:50087422 original size:28 final size:28
Alignment explanation
Indices: 50087344--50087407 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
50087334 TTTTATCAAC
50087344 ATAAAA-AAA-TAAAATAAAATA-AA-ATA
1 ATAAAATAAAGTAAAAT-AAA-ATAAAATA
50087370 ATAAAATAAAGTAAAATAAAAT-AAATAA
1 ATAAAATAAAGTAAAATAAAATAAAAT-A
50087398 ATAAAATAAA
1 ATAAAATAAA
50087408 ATTAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 17 0.52
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (28 bp):
ATAAAATAAAGTAAAATAAAATAAAATA
Found at i:50093238 original size:20 final size:19
Alignment explanation
Indices: 50093212--50093271 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
50093202 TTAAATTCTA
50093212 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
* * *
50093232 AAGGATAATTAAACATAATT
1 AAAGATAAATAAA-ATAAAT
50093252 AAAGATAAATAGAAATAAAT
1 AAAGATAAATA-AAATAAAT
50093272 CCTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:50093239 original size:10 final size:10
Alignment explanation
Indices: 50093212--50093271 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
50093202 TTAAATTCTA
50093212 AAAGATAAAT
1 AAAGATAAAT
50093222 ACAA-ATAAAT
1 A-AAGATAAAT
* *
50093232 AAGGATAATT
1 AAAGATAAAT
* *
50093242 AAACATAATT
1 AAAGATAAAT
50093252 AAAGATAAAT
1 AAAGATAAAT
50093262 AGAA-ATAAAT
1 A-AAGATAAAT
50093272 CCTAAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 36 0.88
11 4 0.10
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:50095181 original size:13 final size:14
Alignment explanation
Indices: 50095150--50095181 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50095140 ACAATATGTT
50095150 AGAAATTTCGTATA
1 AGAAATTTCGTATA
50095164 A-AAATTTCGT-TA
1 AGAAATTTCGTATA
50095176 AGAAAT
1 AGAAAT
50095182 CTTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (14 bp):
AGAAATTTCGTATA
Found at i:50108414 original size:30 final size:31
Alignment explanation
Indices: 50108338--50108420 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
50108328 TTAGTCTCGA
50108338 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
50108368 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
50108399 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
50108421 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:50108679 original size:25 final size:25
Alignment explanation
Indices: 50108649--50108706 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
50108639 ATAATTGGGT
50108649 CAAAGCCC-TTTCTGATAAACTAGGG
1 CAAAGCCCTTTTC-GATAAACTAGGG
* *
50108674 CAAAGCCCTTTTCGGTAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTAGGG
*
50108699 CAGAGCCC
1 CAAAGCCC
50108707 GTTTAGCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (25 bp):
CAAAGCCCTTTTCGATAAACTAGGG
Found at i:50109551 original size:27 final size:26
Alignment explanation
Indices: 50109521--50109598 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
50109511 GGGCGTATTC
*
50109521 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
50109548 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
50109575 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
50109599 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:50109669 original size:27 final size:27
Alignment explanation
Indices: 50109616--50109853 Score: 124
Period size: 27 Copynumber: 8.7 Consensus size: 27
50109606 TTTCATCCTA
* * * * *
50109616 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
50109643 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * *
50109670 CAATAGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* *
50109699 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * *
50109726 CAGGGGTATTTT-GATAATTTTACAAAT
1 CAAGGGTATTTTAG-TAATTTTATAAAC
* ** *
50109753 TAAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
50109779 CTAGTGGTATTTCAGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
50109807 TAGGGGTATTTTGGTAATTTTTACAAAC
1 CAAGGGTATTTTAGTAA-TTTTATAAAC
* * *
50109835 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATT
50109854 CTATCCTACA
Statistics
Matches: 173, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.02
27 110 0.64
28 45 0.26
29 14 0.08
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:50109735 original size:56 final size:54
Alignment explanation
Indices: 50109636--50109773 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 54
50109626 TTGGTAAATC
* *
50109636 TACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAATAGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTGTAAACCAAGAGTATTT-TGATAA-TTT
* * * *
50109691 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGATAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTTGTAAACCAAGAGTATTTTGATAATTT
* *
50109746 TACAAATTAAGGGTATTTCGGTAATTTT
1 TACAAATCAAGGGTATTTCTGTAATTTT
50109774 ACAAACTAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
54 20 0.28
55 14 0.20
56 36 0.51
57 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAAGAGTATTTTGATAATTT
Found at i:50109837 original size:28 final size:28
Alignment explanation
Indices: 50109684--50109853 Score: 172
Period size: 27 Copynumber: 6.2 Consensus size: 28
50109674 AGTATTTCTA
* * *
50109684 TAATTTTTAGAAAGTCAAGGGTATTTCT-G
1 TAATTTTTACAAACT-AGGGGTATTT-TGG
* *
50109713 TAATTTTGTA-AATC-AGGGGTATTTTGA
1 TAATTTT-TACAAACTAGGGGTATTTTGG
* * *
50109740 TAA-TTTTACAAATTAAGGGTATTTCGG
1 TAATTTTTACAAACTAGGGGTATTTTGG
* **
50109767 TAA-TTTTACAAACTAGTGGTATTTCAG
1 TAATTTTTACAAACTAGGGGTATTTTGG
50109794 TAA-TTTTACAAACTAGGGGTATTTTGG
1 TAATTTTTACAAACTAGGGGTATTTTGG
50109821 TAATTTTTACAAACTAGGGGTATTTTGG
1 TAATTTTTACAAACTAGGGGTATTTTGG
50109849 TAATT
1 TAATT
50109854 CTATCCTACA
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.02
26 6 0.05
27 72 0.60
28 29 0.24
29 9 0.08
30 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (28 bp):
TAATTTTTACAAACTAGGGGTATTTTGG
Found at i:50109872 original size:82 final size:81
Alignment explanation
Indices: 50109702--50109886 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 81
50109692 AGAAAGTCAA
* ** *
50109702 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCGG
*
50109767 TAATTTTACAAACTAG
66 TAATTCTACAAACTAG
* * * *
50109783 TGGTATTTCAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTTACAAACTAGGGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGATAA-TTTTACAAACTAAGGGTATTTC
**
50109847 GGTAATTCTATCCTAC-AG
64 GGTAATTCTA-CAAACTAG
*
50109865 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
50109887 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 34 0.39
82 50 0.57
83 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCGG
TAATTCTACAAACTAG
Found at i:50109893 original size:27 final size:27
Alignment explanation
Indices: 50109702--50109886 Score: 185
Period size: 27 Copynumber: 6.8 Consensus size: 27
50109692 AGAAAGTCAA
* **
50109702 GGGTATTTCTGTAATTTTGTAAA-TCAG
1 GGGTATTTCGGTAATTTTACAAACT-AG
* * * *
50109729 GGGTATTTTGATAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTTACAAACTAG
50109756 GGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAG
* *
50109783 TGGTATTTCAGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAG
*
50109810 GGGTATTTTGGTAATTTTTACAAACTAG
1 GGGTATTTCGGTAA-TTTTACAAACTAG
* * **
50109838 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTTA-CAAACTAG
* *
50109865 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTTACAA
50109887 TCGAGGGTAA
Statistics
Matches: 131, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 99 0.76
28 31 0.24
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTAG
Found at i:50109919 original size:27 final size:27
Alignment explanation
Indices: 50109885--50110028 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
50109875 GTAATTTCAC
*
50109885 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
50109912 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
50109939 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
50109966 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
50109993 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
50110020 AATCGAGGG
1 AATCGAGGG
50110029 CATTTCAGTA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 104 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:50110040 original size:81 final size:82
Alignment explanation
Indices: 50109865--50110048 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 82
50109855 TATCCTACAG
* * *
50109865 GGGT-ATTTCAGTAA-TTT-CACAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAAT
1 GGGTAATTTCAGTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAAT
* **
50109927 GGTAATTTTGTAAATCGA
65 GGTAATTCTACAAATCGA
** * * *
50109945 GGGTAAAAT-GGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAA-TCGAGGGTAAAAT
1 GGGTAATTTCAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAAT
50110008 GGTAATTCTACAAATCGA
65 GGTAATTCTACAAATCGA
* *
50110026 GGG-CATTTCAGTAATTTAGTAAA
1 GGGTAATTTCAGTAATTTTGTAAA
50110049 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
80 11 0.13
81 71 0.86
82 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (82 bp):
GGGTAATTTCAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
GTAATTCTACAAATCGA
Found at i:50116120 original size:22 final size:21
Alignment explanation
Indices: 50116080--50116120 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50116070 TATATGGTAT
*
50116080 ATTTATCTTTTAAATTCATAA
1 ATTTATATTTTAAATTCATAA
*
50116101 ATTTATATTTCTATATTCAT
1 ATTTATATTT-TAAATTCAT
50116121 TTAACACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATATTTTAAATTCATAA
Found at i:50126344 original size:44 final size:44
Alignment explanation
Indices: 50126289--50126380 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
50126279 CCGATGTAAC
* * *
50126289 AGTAGCAGTACGACACACATGGTGTCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
50126333 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
50126377 AGTA
1 AGTA
50126381 TCCCTGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:50127408 original size:13 final size:13
Alignment explanation
Indices: 50127390--50127414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50127380 CTAATTTCCC
50127390 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
50127403 TTTCTTTCTTTC
1 TTTCTTTCTTTC
50127415 CTTCTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:50127411 original size:17 final size:17
Alignment explanation
Indices: 50127389--50127425 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50127379 CCTAATTTCC
*
50127389 CTTTCTTTCTTTCTTTT
1 CTTTCTTTCCTTCTTTT
50127406 CTTTCTTTCCTTCTTTT
1 CTTTCTTTCCTTCTTTT
50127423 CTT
1 CTT
50127426 CTCTATTTTT
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:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
CTTTCTTTCCTTCTTTT
Found at i:50127426 original size:8 final size:9
Alignment explanation
Indices: 50127389--50127474 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
50127379 CCTAATTTCC
50127389 CTTTC-TTT
1 CTTTCTTTT
50127397 CTTTCTTTT
1 CTTTCTTTT
50127406 CTTTC-TTT
1 CTTTCTTTT
*
50127414 CCTTCTTTT
1 CTTTCTTTT
*
50127423 CTTCTCTATT
1 CTT-TCTTTT
* *
50127433 -TTTGTTTCA
1 CTTTCTTT-T
*
50127442 CATTCTGTTT
1 CTTTCT-TTT
*
50127452 CTTTTCTATT
1 C-TTTCTTTT
*
50127462 CTTTCATTT
1 CTTTCTTTT
50127471 CTTT
1 CTTT
50127475 TATTCTTTGT
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
8 15 0.26
9 25 0.43
10 12 0.21
11 6 0.10
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.69
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:50127548 original size:18 final size:17
Alignment explanation
Indices: 50127522--50127561 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
50127512 ATAATATATA
*
50127522 TATTACTTAAATATTAAT
1 TATTTCTTAAATATT-AT
*
50127540 TATTTCTTAATTATTAT
1 TATTTCTTAAATATTAT
50127557 TATTT
1 TATTT
50127562 ACATATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTCTTAAATATTAT
Found at i:50127750 original size:28 final size:30
Alignment explanation
Indices: 50127683--50127751 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 30
50127673 TTATTTTATG
50127683 TTTA-TAATAATATTATAATAATATAATATA
1 TTTACTAAT-ATATTATAATAATATAATATA
50127713 TTTACT--TATATTATAAGTAA-ATAATA-A
1 TTTACTAATATATTATAA-TAATATAATATA
50127740 -TTACTAATATAT
1 TTTACTAATATAT
50127752 GTATTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 20 0.57
29 4 0.11
30 4 0.11
31 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTACTAATATATTATAATAATATAATATA
Found at i:50127967 original size:13 final size:14
Alignment explanation
Indices: 50127949--50127977 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50127939 AATCAACTTC
50127949 ATAAATATTT-CAA
1 ATAAATATTTACAA
50127962 ATAAATATTTACAA
1 ATAAATATTTACAA
50127976 AT
1 AT
50127978 CCATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATATTTACAA
Found at i:50130590 original size:42 final size:42
Alignment explanation
Indices: 50130517--50130597 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
50130507 TAAGTTTCAG
* *
50130517 TTAACCCTTACGGGTTTCAATTTAACTCTTATGAGCTTCCGT
1 TTAACCCTTACAGGTTTCAATTTAACACTTATGAGCTTCCGT
* ** * *
50130559 TTAACCCTTTCAGGTTTCCGTTTAGCACTTATGTGCTTC
1 TTAACCCTTACAGGTTTCAATTTAACACTTATGAGCTTC
50130598 AGTTAGCCTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (42 bp):
TTAACCCTTACAGGTTTCAATTTAACACTTATGAGCTTCCGT
Found at i:50136589 original size:5 final size:5
Alignment explanation
Indices: 50136540--50136582 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
50136530 AAGAAATTGT
50136540 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
50136583 ATTATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:50138032 original size:2 final size:2
Alignment explanation
Indices: 50138025--50138060 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
50138015 AATAATTGAG
50138025 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
50138061 TGAATTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50138365 original size:45 final size:45
Alignment explanation
Indices: 50138306--50138423 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
50138296 CAGGCACTTA
* * *
50138306 TGTGCCGACTACTGTTACTGTTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCAACACTTTG
*
50138351 TGTGTCGAATACTGTTACTGTTA-TCGTTATCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACT-GTTACCGATTCAACACTTTG
*
50138396 TGTGTTGAATACTGTTACTGTTACTGTT
1 TGTGTCGAATACTGTTACTGTTACTGTT
50138424 TCGGATTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.02
45 64 0.97
46 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCAACACTTTG
Found at i:50138620 original size:18 final size:18
Alignment explanation
Indices: 50138599--50138789 Score: 181
Period size: 18 Copynumber: 10.6 Consensus size: 18
50138589 TAACTGATTA
50138599 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
50138617 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
50138635 TTACTGGATAATAGACTG
1 TTACTGAATAATTGACTG
* * *
50138653 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
50138671 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
50138689 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
50138707 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* *
50138725 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
50138744 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
* *
50138761 TTACTAAATAATTGGCTG
1 TTACTGAATAATTGACTG
*
50138779 TTACTGGATAA
1 TTACTGAATAA
50138790 CCGATCAATT
Statistics
Matches: 141, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
17 12 0.09
18 116 0.82
19 13 0.09
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:50138639 original size:36 final size:35
Alignment explanation
Indices: 50138587--50138869 Score: 190
Period size: 36 Copynumber: 7.7 Consensus size: 35
50138577 AAAGGTATAA
* *
50138587 AATAACTGATTATTACTGAATAATTGACTGTTACTG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
* * *
50138623 AATAATTGACTGTTACTGGATAATAGACTGTTACTG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
* * *
50138659 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGAT-GTTACTG
* * *
50138695 AATAACTGATTGTCACTGAATAAATGACTGTTACTG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
* * * * *
50138731 AATAACTTAATTGCTACTGAAT-ATCTGATTTTACTA
1 AATAAC-TGACTGTTACTGAATAAT-TGATGTTACTG
* * *
50138767 AATAATTGGCTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGACTGTTACT-G---A---AT-AATTGAT-GTTACTG
** * * *
50138811 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
*
50138847 AATAAGTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
50138870 ATAATTGTTC
Statistics
Matches: 191, Mismatches: 41, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
35 8 0.04
36 136 0.71
37 19 0.10
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
AATAACTGACTGTTACTGAATAATTGATGTTACTG
Found at i:50138724 original size:72 final size:72
Alignment explanation
Indices: 50138587--50138737 Score: 216
Period size: 72 Copynumber: 2.1 Consensus size: 72
50138577 AAAGGTATAA
* * * * *
50138587 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGGATAATAGACT
1 AATAACTGAATATTACTGAATAATTGACTATTACTGAATAACTGACTGTCACTGAATAATAGACT
50138652 GTTACTG
66 GTTACTG
*
50138659 AATAACTGAATATTACTGAATAATTGA-TCATTACTGAATAACTGATTGTCACTGAATAA-ATGA
1 AATAACTGAATATTACTGAATAATTGACT-ATTACTGAATAACTGACTGTCACTGAATAATA-GA
50138722 CTGTTACTG
64 CTGTTACTG
50138731 AATAACT
1 AATAACT
50138738 TAATTGCTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGACTATTACTGAATAACTGACTGTCACTGAATAATAGACT
GTTACTG
Found at i:50138765 original size:72 final size:71
Alignment explanation
Indices: 50138587--50138789 Score: 214
Period size: 72 Copynumber: 2.8 Consensus size: 71
50138577 AAAGGTATAA
* * * * *
50138587 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGGATAATAGACT
1 AATAACTGAATATTACTGAATAATTGA-TATTACTGAATAACTGACTGTCACTGAATAATAGACT
50138652 GTTACTG
65 GTTACTG
*
50138659 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATAA-ATGAC
1 AATAACTGAATATTACTGAATAATTGAT-ATTACTGAATAACTGACTGTCACTGAATAATA-GAC
50138723 TGTTACTG
64 TGTTACTG
* * * * * * *
50138731 AATAACTTAAT-TGCTACTGAAT-ATCTGATTTTACTAAATAATTGGCTGTTACTGGATAA
1 AATAACTGAATAT--TACTGAATAAT-TGATATTACTGAATAACTGACTGTCACTGAATAA
50138790 CCGATCAATT
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
71 3 0.03
72 97 0.87
73 12 0.11
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (71 bp):
AATAACTGAATATTACTGAATAATTGATATTACTGAATAACTGACTGTCACTGAATAATAGACTG
TTACTG
Found at i:50138878 original size:18 final size:18
Alignment explanation
Indices: 50138587--50138882 Score: 148
Period size: 18 Copynumber: 16.1 Consensus size: 18
50138577 AAAGGTATAA
* *
50138587 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* *
50138605 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
50138623 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
50138641 GAT-AATAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
50138659 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* **
50138677 AATAATTGATCATTACTG
1 AATAAATGATTGTTACTG
* *
50138695 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
*
50138713 AATAAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
50138731 AATAACTTAATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
50138750 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* **
50138767 AATAATTGGCTGTTACTG
1 AATAAATGATTGTTACTG
* *
50138785 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
50138811 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
50138829 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
50138847 AATAAGTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
50138865 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
50138882 A
1 A
50138883 TTGTTAATGA
Statistics
Matches: 211, Mismatches: 55, Indels: 25
0.73 0.19 0.09
Matches are distributed among these distances:
17 17 0.08
18 162 0.77
19 15 0.07
21 2 0.01
22 4 0.02
23 2 0.01
26 9 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:50143369 original size:20 final size:21
Alignment explanation
Indices: 50143330--50143369 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50143320 GTCCTAACGG
50143330 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
*
50143351 CCACACGGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
50143370 GTTTCTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:50144995 original size:49 final size:49
Alignment explanation
Indices: 50144923--50145110 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
50144913 TGAGGTCACG
*
50144923 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
50144972 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
50145023 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTAGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
50145072 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
50145111 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:50145091 original size:100 final size:100
Alignment explanation
Indices: 50144918--50145105 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
50144908 TATTGTGAGG
* *
50144918 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTAGCATGTGTAGTACT
50144983 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
50145018 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTAGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTAGCATGTGTAGTACT
50145083 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
50145106 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTAGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:50148112 original size:15 final size:16
Alignment explanation
Indices: 50148089--50148136 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
50148079 TAGTATCGTA
50148089 TCTTGGGTTTCTTTAT
1 TCTTGGGTTTCTTTAT
50148105 TC-TGGGTTT-TTCTA-
1 TCTTGGGTTTCTT-TAT
*
50148119 TCTTGGATTTCTTTAT
1 TCTTGGGTTTCTTTAT
50148135 TC
1 TC
50148137 GATTTTCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
14 4 0.15
15 17 0.63
16 6 0.22
ACGTcount: A:0.08, C:0.15, G:0.17, T:0.60
Consensus pattern (16 bp):
TCTTGGGTTTCTTTAT
Found at i:50151057 original size:49 final size:49
Alignment explanation
Indices: 50150890--50151077 Score: 189
Period size: 49 Copynumber: 3.8 Consensus size: 49
50150880 TGAGGTCACG
**
50150890 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
50150939 TGTATAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TGGTCGCA
* * * * *
50150990 TGTGTAGCACTAATTGCAGGTTACTACATGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
50151039 AGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
50151078 GCTTTGGCTA
Statistics
Matches: 106, Mismatches: 29, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
49 68 0.64
50 6 0.06
51 32 0.30
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:50151058 original size:100 final size:100
Alignment explanation
Indices: 50150885--50151072 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
50150875 TATTGTGAGG
* * ** *
50150885 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTATAGTACT
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCAAGTATAGTACT
50150950 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
* * * *
50150985 TCACGTGTGTAGCACTAATTGCAGGTTACTACATGTACCAGATTATTGGTCGCAAGTGTAGTACT
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCAAGTATAGTACT
50151050 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
50151073 AGATAGCTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGCACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCAAGTATAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:50162827 original size:50 final size:50
Alignment explanation
Indices: 50162747--50162849 Score: 143
Period size: 50 Copynumber: 2.1 Consensus size: 50
50162737 TCCATGGCAG
* * * *
50162747 TATGTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGA
1 TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
* * *
50162797 TATGTGCGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGA
1 TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
50162847 TAT
1 TAT
50162850 ATAATATCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
Found at i:50163012 original size:47 final size:48
Alignment explanation
Indices: 50162900--50163027 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 48
50162890 ATGAGATCCT
* *
50162900 GTATAAGACCA-TGTCTGGGACATGGCATCAGCATCATTATGAGGCCTC
1 GTATAAGACCAGT-TCTAGGACATGGCATCGGCATCATTATGAGGCCTC
* * *
50162948 GTATAAGACCACG-TCTAGGACCTGGCATCGGCGTC-TTATGAGGTCTC
1 GTATAAGACCA-GTTCTAGGACATGGCATCGGCATCATTATGAGGCCTC
*
50162995 GTATAAGA-CAGTATCTAGGATATGGCATCGGCA
1 GTATAAGACCAGT-TCTAGGACATGGCATCGGCA
50163028 CCAAGTTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 2 0.03
47 36 0.53
48 29 0.43
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (48 bp):
GTATAAGACCAGTTCTAGGACATGGCATCGGCATCATTATGAGGCCTC
Found at i:50163086 original size:48 final size:48
Alignment explanation
Indices: 50162754--50163086 Score: 197
Period size: 48 Copynumber: 7.0 Consensus size: 48
50162744 CAGTATGTGT
* * ** *
50162754 GATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTGC
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATA--TGA
* *
50162804 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATAT-A
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* ** * * * ** *
50162851 TAATATC-AAGTAATACCATATCT---A-A-GATAT-GGCATTGATATGA
1 -GATCCCGTA-TAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* *
50162894 GATCCTGTATAAGACCATGTCTGGGACATGGCATCAGCATC-ATTATGA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGA-TATGA
* * * * * *
50162942 G-GCCTCGTATAAGACCACGTCTAGGACCTGGCATCGGCGTC-TTATGA
1 GATCC-CGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* * * * * * *
50162989 GGTCTCGTATAAGA-CAGTATCTAGGATATGGCATCGGCACCAAGT-TGA
1 GATCCCGTATAAGACCA-TGTCTGGGACATGGCATCGGCATCGA-TATGA
* * *
50163037 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
50163085 GA
1 GA
50163087 CATTGTGTAA
Statistics
Matches: 212, Mismatches: 53, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
42 23 0.11
43 5 0.02
44 1 0.00
45 2 0.01
46 3 0.01
47 41 0.19
48 95 0.45
49 3 0.01
50 39 0.18
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
Found at i:50169907 original size:48 final size:47
Alignment explanation
Indices: 50169836--50170002 Score: 153
Period size: 48 Copynumber: 3.5 Consensus size: 47
50169826 AGGCCGACGC
*
50169836 CATGTCCCAGACATTGTCTTACACTGGCTCTCACATCTCCGTGCCGATG
1 CATGTCCCAAACA-TGTCTTACACTGGCTCTCACATCT-CGTGCCGATG
* * * * * *
50169885 CATGCCCCAGACATGTCTTACACTAGCTCT--CATTTCAATGCCAATG
1 CATGTCCCAAACATGTCTTACACTGGCTCTCACATCTC-GTGCCGATG
* * * *
50169931 CCATGTCCCAAACATGGTCTTACAATGGCTCTCATA-GT-GTGGCTGATG
1 -CATGTCCCAAACAT-GTCTTACACTGGCTCTCACATCTCGT-GCCGATG
50169979 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
50170003 AGCGCAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 20 0.21
47 27 0.28
48 35 0.36
49 13 0.13
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTGGCTCTCACATCTCGTGCCGATG
Found at i:50169934 original size:96 final size:94
Alignment explanation
Indices: 50169834--50170005 Score: 238
Period size: 96 Copynumber: 1.8 Consensus size: 94
50169824 CGAGGCCGAC
* * * *
50169834 GCCATGTCCCAGACATTGTCTTACACTGGCTCTCACATCTCCGT-GCCGATGCATGCCCCAGACA
1 GCCATGTCCCAAACATGGTCTTACAATGGCTCTCACA-CT--GTGGCCGATGCATGCCCCAAACA
50169898 TGTCTTACACTAGCTCTCATTTCAATGCCAAT
63 TGTCTTACACTAGCTCTCATTTCAATGCCAAT
* * * *
50169930 GCCATGTCCCAAACATGGTCTTACAATGGCTCTCATAGTGTGGCTGATGCATGTCCCAAACATGT
1 GCCATGTCCCAAACATGGTCTTACAATGGCTCTCACACTGTGGCCGATGCATGCCCCAAACATGT
50169995 CTTACACTAGC
66 CTTACACTAGC
50170006 GCAAAAATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 31 0.46
95 1 0.01
96 33 0.49
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (94 bp):
GCCATGTCCCAAACATGGTCTTACAATGGCTCTCACACTGTGGCCGATGCATGCCCCAAACATGT
CTTACACTAGCTCTCATTTCAATGCCAAT
Found at i:50175862 original size:31 final size:31
Alignment explanation
Indices: 50175816--50175891 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
50175806 GTTACAATTG
*
50175816 GTCATTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTGAAAGTTTTCATTTAA
* * * *
50175847 GTTACTGAATTATTTGAAAGTTTTTATTTAT
1 GTCACTGAACTATTTGAAAGTTTTCATTTAA
*
50175878 GTCACTGAGCTATT
1 GTCACTGAACTATT
50175892 AAGTGTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (31 bp):
GTCACTGAACTATTTGAAAGTTTTCATTTAA
Found at i:50180761 original size:26 final size:26
Alignment explanation
Indices: 50180715--50180764 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
50180705 ATATAAAAGT
50180715 ATAATGAAAGAAAAATCTTAAAATGG
1 ATAATGAAAGAAAAATCTTAAAATGG
* *
50180741 ATAAT-AAATAAAATATTTTAAAAT
1 ATAATGAAAGAAAA-ATCTTAAAAT
50180765 AAATAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (26 bp):
ATAATGAAAGAAAAATCTTAAAATGG
Found at i:50180770 original size:26 final size:26
Alignment explanation
Indices: 50180715--50180770 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
50180705 ATATAAAAGT
**
50180715 ATAATGAAAGAAAAATCTTAAAATGG
1 ATAATGAAAGAAAAATCTTAAAATAA
* *
50180741 ATAAT-AAATAAAATATTTTAAAATAA
1 ATAATGAAAGAAAA-ATCTTAAAATAA
50180767 ATAA
1 ATAA
50180771 ATAGAGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
ATAATGAAAGAAAAATCTTAAAATAA
Found at i:50180784 original size:19 final size:19
Alignment explanation
Indices: 50180743--50180782 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50180733 TAAAATGGAT
* *
50180743 AATAAATAAAATATTTTAA
1 AATAAATAAAAGAGTTTAA
50180762 AATAAATAAATAGAGTTTAA
1 AATAAATAAA-AGAGTTTAA
50180782 A
1 A
50180783 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AATAAATAAAAGAGTTTAA
Found at i:50180857 original size:16 final size:16
Alignment explanation
Indices: 50180821--50180858 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50180811 ACAATTTGAA
50180821 ATAAAATATAAATAGT
1 ATAAAATATAAATAGT
*
50180837 TTAAAATATATAATA-T
1 ATAAAATATA-AATAGT
50180853 ATAAAA
1 ATAAAA
50180859 GGAAATCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
ATAAAATATAAATAGT
Found at i:50188408 original size:17 final size:18
Alignment explanation
Indices: 50188370--50188409 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
50188360 TTGTAATTAA
*
50188370 AATTAAGTTGAGAAAATT
1 AATTTAGTTGAGAAAATT
50188388 -ATTTAGTTGAG-AAATT
1 AATTTAGTTGAGAAAATT
50188404 AATTTA
1 AATTTA
50188410 ATTAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (18 bp):
AATTTAGTTGAGAAAATT
Found at i:50199264 original size:29 final size:29
Alignment explanation
Indices: 50199231--50199333 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
50199221 GTGACGAGAT
50199231 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50199260 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
50199289 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
50199318 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
50199334 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50207219 original size:29 final size:29
Alignment explanation
Indices: 50207186--50207288 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
50207176 GTGACGAGAT
50207186 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50207215 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
50207244 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
50207273 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
50207289 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50214093 original size:49 final size:49
Alignment explanation
Indices: 50214036--50214205 Score: 207
Period size: 49 Copynumber: 3.5 Consensus size: 49
50214026 TATTGTGTGT
**
50214036 CAGTGTAAGACCTGTCTAAGACATGGCATCGACACCGATAGATGAGGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
* * * ****
50214085 CAGTGTAAGACCTGTCTGGGACTTGGCATCAAC-CTCGATATATGAAATT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGGGC
* * * *
50214134 CAATGTAAGACCTATTTGGGACATGGCATCGACACCAATAGATGAGGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
50214183 CAGTGTAAGACCTGTCTGGGACA
1 CAGTGTAAGACCTGTCTGGGACA
50214206 GACCTGTCTG
Statistics
Matches: 96, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
48 1 0.01
49 94 0.98
50 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
Found at i:50214210 original size:15 final size:15
Alignment explanation
Indices: 50214190--50214220 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50214180 GGCCAGTGTA
50214190 AGACCTGTCTGGGAC
1 AGACCTGTCTGGGAC
50214205 AGACCTGTCTGGGAC
1 AGACCTGTCTGGGAC
50214220 A
1 A
50214221 CGGCATCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.19
Consensus pattern (15 bp):
AGACCTGTCTGGGAC
Found at i:50216632 original size:37 final size:37
Alignment explanation
Indices: 50216582--50216672 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
50216572 TTATTACGAA
50216582 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
50216619 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
50216656 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
50216673 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:50216767 original size:48 final size:48
Alignment explanation
Indices: 50216712--50217055 Score: 616
Period size: 48 Copynumber: 7.2 Consensus size: 48
50216702 TGTTACAACA
*
50216712 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
50216760 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
50216808 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
50216856 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
50216904 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
50216952 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
50217000 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
50217048 TTCACATT
1 TTCACATT
50217056 CATCACATTA
Statistics
Matches: 285, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 285 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:50222481 original size:28 final size:28
Alignment explanation
Indices: 50222449--50222506 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
50222439 AATATTTGCC
50222449 TATTTAAAAGAAGGCTTTTT-ATTGTACT
1 TATTTAAAAGAAGG-TTTTTGATTGTACT
**
50222477 TATTTAGTAGAAGGTTTTTGATTGTACT
1 TATTTAAAAGAAGGTTTTTGATTGTACT
50222505 TA
1 TA
50222507 GTTCAAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.48
Consensus pattern (28 bp):
TATTTAAAAGAAGGTTTTTGATTGTACT
Found at i:50223768 original size:30 final size:30
Alignment explanation
Indices: 50223724--50223786 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
50223714 TCTTAACAAG
50223724 CAAATGCCTATAAAATAATAACAAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
* *
50223754 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
50223784 CAA
1 CAA
50223787 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTATAAAATAATAACAAAATTAA
Found at i:50225038 original size:26 final size:27
Alignment explanation
Indices: 50225004--50225054 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
50224994 TATTGGTAAT
50225004 ATATTTGAATTAT-TAAATTATTTTAC
1 ATATTTGAATTATGTAAATTATTTTAC
*
50225030 ATATTTGAATTATGTTAATTATTTT
1 ATATTTGAATTATGTAAATTATTTT
50225055 TTATTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (27 bp):
ATATTTGAATTATGTAAATTATTTTAC
Found at i:50225126 original size:22 final size:22
Alignment explanation
Indices: 50225101--50225145 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50225091 AAGTAAAACT
50225101 ATACTATATATTAAATATGTTA
1 ATACTATATATTAAATATGTTA
50225123 ATACTATATATTAAATATGTTA
1 ATACTATATATTAAATATGTTA
50225145 A
1 A
50225146 AAATACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
ATACTATATATTAAATATGTTA
Found at i:50225983 original size:51 final size:51
Alignment explanation
Indices: 50225915--50226052 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
50225905 ATCTACAATC
* * * *
50225915 AAATCTCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* ** *
50225966 AAATATGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* * *
50226017 AGATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 AAATATCTAAGATTATAAAATCATATCTTATAAGAT
50226053 CATGTTTCCA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.38
Consensus pattern (51 bp):
AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
Found at i:50225995 original size:15 final size:16
Alignment explanation
Indices: 50225928--50226009 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 16
50225918 TCTCTAAGAA
50225928 TATAAAAT-CATATCT
1 TATAAAATACATATCT
* *
50225943 TCTAAGATTACATATCT
1 TATAA-AATACATATCT
**
50225960 TATCTAAAATATGTAATCT
1 TA--TAAAATACAT-ATCT
50225979 TATAAAATA-ATATCT
1 TATAAAATACATATCT
*
50225994 TATAAGATTACATATC
1 TATAA-AATACATATC
50226010 ATATCTAAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
15 13 0.25
16 6 0.12
17 20 0.38
18 4 0.08
19 9 0.17
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (16 bp):
TATAAAATACATATCT
Found at i:50231158 original size:17 final size:17
Alignment explanation
Indices: 50231136--50231220 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
50231126 AATATAAAAT
50231136 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
50231153 CATATCTTATCTAAGA-TA
1 CATATC-T-TCTAAGATTA
* * *
50231171 TATAATCTTGTAA-AATA
1 CAT-ATCTTCTAAGATTA
* *
50231188 -ATATCTTATAAAATTA
1 CATATCTTCTAAGATTA
50231204 CATATCATATCTAAGAT
1 CATATC-T-TCTAAGAT
50231221 CTCTAAGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 8 0.15
16 6 0.11
17 17 0.31
18 7 0.13
19 16 0.30
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:50231185 original size:51 final size:51
Alignment explanation
Indices: 50231122--50231252 Score: 163
Period size: 51 Copynumber: 2.6 Consensus size: 51
50231112 ATCAAATCTC
* * *
50231122 TAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATATA
1 TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
** * * * * *
50231173 TAATCTTGTAAAATAATATCTTATAAAATTACATATCATATCTAAGATCTC
1 TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
*
50231224 TAAGATTATAAAATCATATCTTTTAAGAT
1 TAAGATTATAAAATCATATCTTATAAGAT
50231253 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.39
Consensus pattern (51 bp):
TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
Found at i:50231199 original size:15 final size:16
Alignment explanation
Indices: 50231128--50231209 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 16
50231118 TCTCTAAGAA
50231128 TATAAAAT-CATATCT
1 TATAAAATACATATCT
* *
50231143 TCTAAGATTACATATCT
1 TATAA-AATACATATCT
* *
50231160 TATCTAAGATATATAATCT
1 TA--TAAAATACAT-ATCT
*
50231179 TGTAAAATA-ATATCT
1 TATAAAATACATATCT
50231194 TATAAAATTACATATC
1 TATAAAA-TACATATC
50231210 ATATCTAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
15 14 0.27
16 6 0.12
17 19 0.37
18 4 0.08
19 8 0.16
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (16 bp):
TATAAAATACATATCT
Found at i:50233224 original size:42 final size:42
Alignment explanation
Indices: 50233160--50233323 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
50233150 TTAAGGTTAT
50233160 TGAGACTAT-GTGTAAGACCATATCTGGGATATGGCATC-AGTA
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGGCATCGA-TA
* * *
50233202 TGAGACTTCGTGTAAGATCATATTTGGGATGTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
50233244 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTAGCATCGAAA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
50233287 CGAGA-TCCTATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACTTC-GTGTAAGACCATATCTGGGATATGGCAT
50233324 TGGTGTGGTA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 67 0.66
43 33 0.33
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:50246792 original size:35 final size:35
Alignment explanation
Indices: 50246691--50246991 Score: 399
Period size: 35 Copynumber: 8.6 Consensus size: 35
50246681 TCCTTATTGA
* * *
50246691 AATACCATATCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
** **
50246726 AATGTCATACCTACG-TTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
50246760 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
50246795 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
50246830 AATACCATACCTACGTTTCATAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
50246865 GATACTATACCTACGTTGCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
50246900 GATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
50246935 AATACCATACTTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
50246970 GATACCATACCTATGTTTCACA
1 AATACCATACCTACGTTTCACA
50246992 CTTTGCCATG
Statistics
Matches: 231, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
33 3 0.01
34 25 0.11
35 203 0.88
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:50246896 original size:105 final size:105
Alignment explanation
Indices: 50246692--50246991 Score: 458
Period size: 105 Copynumber: 2.9 Consensus size: 105
50246682 CCTTATTGAA
* * ** ** *
50246692 ATACCATATCTACATTTCACAACTCGGTATGGGAAATGTCATACCTACG-TTCTTAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
* *
50246756 GGATAATACCATACCTACGTTTCACAACTCGGTATGGATG
66 GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
*
50246796 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
* *
50246861 GGATGATACTATACCTACGTTGCACAACTCAGTATGGATG
66 GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
* *
50246901 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACTTACGTTTCACAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
*
50246966 GGATGATACCATACCTATGTTTCACA
66 GGATGATACCATACCTACGTTTCACA
50246992 CTTTGCCATG
Statistics
Matches: 177, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 42 0.24
105 135 0.76
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (105 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
Found at i:50247327 original size:2 final size:2
Alignment explanation
Indices: 50247322--50247349 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50247312 TCATTCACAC
50247322 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
50247350 TCCTCCTCCT
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:50249929 original size:20 final size:20
Alignment explanation
Indices: 50249904--50249947 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
50249894 TAAATAAAAA
50249904 AAATGAGTATAATATA-TGTT
1 AAATGAGTATAATA-AGTGTT
50249924 AAATGAGTATAATAAGTGTT
1 AAATGAGTATAATAAGTGTT
50249944 AAAT
1 AAAT
50249948 TAGTGTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (20 bp):
AAATGAGTATAATAAGTGTT
Found at i:50251561 original size:51 final size:51
Alignment explanation
Indices: 50251485--50251587 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
50251475 CTACTGGTTT
*
50251485 AGTGGAAATAAAGTGAAATGGGGTTGCATCCTCAAATTCAAACAAACTCTC
1 AGTGGAAATAAAGTGAAATAGGGTTGCATCCTCAAATTCAAACAAACTCTC
50251536 AGTGGAAATAAAGTGAAATAGGGTTGCATCCTCAAATTCAAACAAACTCTC
1 AGTGGAAATAAAGTGAAATAGGGTTGCATCCTCAAATTCAAACAAACTCTC
50251587 A
1 A
50251588 TAAGGACCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (51 bp):
AGTGGAAATAAAGTGAAATAGGGTTGCATCCTCAAATTCAAACAAACTCTC
Found at i:50254336 original size:3 final size:3
Alignment explanation
Indices: 50254330--50254355 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50254320 ATATATAAAT
50254330 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
50254356 TGTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50254400 original size:15 final size:15
Alignment explanation
Indices: 50254382--50254413 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50254372 TTATTTTTAT
50254382 ATTATATATTATATA
1 ATTATATATTATATA
*
50254397 ATTATTTATTATATA
1 ATTATATATTATATA
50254412 AT
1 AT
50254414 ATTTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATATATTATATA
Found at i:50254491 original size:25 final size:24
Alignment explanation
Indices: 50254441--50254500 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
50254431 CACGAAATAT
*
50254441 TATTATTTTACATTATTATTTATA
1 TATTATTTTACATTATTACTTATA
* *
50254465 TATTATTATTACATTTTTACTTGTA
1 TATTATT-TTACATTATTACTTATA
*
50254490 TAATATATTTA
1 TATTAT-TTTA
50254501 TTAATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 22 0.73
26 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTATTTTACATTATTACTTATA
Found at i:50254495 original size:55 final size:50
Alignment explanation
Indices: 50254392--50254534 Score: 129
Period size: 51 Copynumber: 2.9 Consensus size: 50
50254382 ATTATATATT
* * *
50254392 ATATAATTATTTATTATATA-ATAT-TTATATATTACTTTTCAC--G-A-A
1 ATATATTTATTAATTATATATATATATTATATATTA-TTTTTACTTGTATA
* *
50254437 ATATTATTATTTTACATTATTATTTATATATTAT-TATTACATTTTTACTTGTATA
1 ATA-TATT-TATTA-ATTA-TATATATATATTATATATT--ATTTTTACTTGTATA
50254492 ATATATTTATTAATTATATATATATATTATATATTATTTTTAC
1 ATATATTTATTAATTATATATATATATTATATATTATTTTTAC
50254535 ATATATACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
45 3 0.04
46 3 0.04
47 3 0.04
48 4 0.05
49 3 0.04
50 16 0.21
51 23 0.29
52 9 0.12
53 5 0.06
54 5 0.06
55 4 0.05
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (50 bp):
ATATATTTATTAATTATATATATATATTATATATTATTTTTACTTGTATA
Found at i:50254502 original size:58 final size:60
Alignment explanation
Indices: 50254440--50254580 Score: 159
Period size: 58 Copynumber: 2.4 Consensus size: 60
50254430 TCACGAAATA
* * *
50254440 TTATTATTTTACATTAT-TAT-TTATATATTATTATTACATTTTTACTTGT-ATAATATAT
1 TTATTATTTTATATTATATATATTATATATTATTATTACATATATACTT-TCATAATATAT
* * *
50254498 TTATTA-ATTATA-TATATATATTATATATTATTTTTACATATATACTTTCATATTATAT
1 TTATTATTTTATATTATATATATTATATATTATTATTACATATATACTTTCATAATATAT
50254556 TATAATTATTTTATATTATAT-TATT
1 T-T-ATTATTTTATATTATATATATT
50254581 TTTTTATACT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
56 3 0.04
57 8 0.12
58 39 0.57
59 1 0.01
60 4 0.06
61 9 0.13
62 5 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (60 bp):
TTATTATTTTATATTATATATATTATATATTATTATTACATATATACTTTCATAATATAT
Found at i:50254571 original size:16 final size:15
Alignment explanation
Indices: 50254550--50254600 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 15
50254540 TACTTTCATA
50254550 TTATATTATAATTATT
1 TTATATTAT-ATTATT
50254566 TTATATTATATTATT
1 TTATATTATATTATT
*
50254581 TT-T-TTATACTATT
1 TTATATTATATTATT
*
50254594 ATATATT
1 TTATATT
50254601 TTTTTATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 10 0.32
14 2 0.06
15 10 0.32
16 9 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:50254587 original size:18 final size:18
Alignment explanation
Indices: 50254547--50254619 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 18
50254537 ATATACTTTC
50254547 ATATTATATTATAATTATTTT
1 ATATTATATTAT--TT-TTTT
50254568 ATATTATATTATTTTTTT
1 ATATTATATTATTTTTTT
*
50254586 ATACTATTATATATTTTTTT
1 ATATTA-TAT-TATTTTTTT
*
50254606 ATCTATATATTATT
1 ATAT-TATATTATT
50254620 ATCATTAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.20
19 9 0.20
20 14 0.30
21 14 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTATATTATTTTTTT
Found at i:50254593 original size:21 final size:21
Alignment explanation
Indices: 50254548--50254619 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
50254538 TATACTTTCA
*
50254548 TATTATATTATAATTATTT-TA-
1 TATTATATTAT--TTTTTTATAC
50254569 TATTATATTATTTTTTTATAC
1 TATTATATTATTTTTTTATAC
50254590 TATTATA-TATTTTTTTAT-C
1 TATTATATTATTTTTTTATAC
50254609 TA-TATATTATT
1 TATTATATTATT
50254620 ATCATTAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
18 4 0.09
19 12 0.26
20 13 0.28
21 18 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATATTATTTTTTTATAC
Found at i:50254598 original size:102 final size:99
Alignment explanation
Indices: 50254383--50254621 Score: 217
Period size: 100 Copynumber: 2.4 Consensus size: 99
50254373 TATTTTTATA
*
50254383 TTATATATTATATAATTATTTATTATATA-ATAT-TTATATATTACTTTTCACGAAATATTATTA
1 TTATATATTATATATTTA-TTATTATATATATATATTATATATTACTTTTCACGAAATATTATTA
* *
50254446 TTTTACATTATTATTTATATATTATTATTACATTT
65 TTATACATAATTATTTATATATTATTATTACATTT
* * *
50254481 TTACTTGTATAATATATTTATTAATTATATATATATATTATATATTA-TTTTTAC-ATATATACT
1 TTA--TATATTATATATTTATT-ATTATATATATATATTATATATTACTTTTCACGA-A-ATA-T
* **
50254544 T-TCATATTATATTATAATTATTT-TATATTA-TATTATTTTT
60 TAT--TATTATA-CATAATTATTTATATATTATTATTACATTT
*
50254584 TTATACTATTATATATTT-TT-TTATCTATATATTATTAT
1 TTATA-TATTATATATTTATTATTATATATATA-TATTAT
50254622 CATTAAAGGT
Statistics
Matches: 116, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
98 3 0.03
99 12 0.10
100 27 0.23
101 14 0.12
102 25 0.22
103 13 0.11
104 13 0.11
105 9 0.08
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.59
Consensus pattern (99 bp):
TTATATATTATATATTTATTATTATATATATATATTATATATTACTTTTCACGAAATATTATTAT
TATACATAATTATTTATATATTATTATTACATTT
Found at i:50254776 original size:21 final size:23
Alignment explanation
Indices: 50254751--50254809 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
50254741 ATCATTAATT
*
50254751 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
50254772 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
50254796 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
50254810 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:50254962 original size:24 final size:25
Alignment explanation
Indices: 50254929--50254975 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
50254919 TATATTATAT
50254929 ATTATATTAAATA-C-TATTTTAAA
1 ATTATATTAAATATCATATTTTAAA
50254952 ATTATTATTAAATATCATATTTTA
1 ATTA-TATTAAATATCATATTTTA
50254976 TTTGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 1 0.05
26 7 0.33
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATTAAATATCATATTTTAAA
Found at i:50267089 original size:206 final size:206
Alignment explanation
Indices: 50266671--50267218 Score: 753
Period size: 206 Copynumber: 2.7 Consensus size: 206
50266661 TAGTTGAAGC
* **
50266671 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAAGAGCAAATCGAAGACATAACTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
** *
50266736 TTTCACGTGCTTACATTGAATCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
66 TTTCACGTGCTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
* * * * * * * *
50266801 TCTAAGCCTGGCATTTTCCACTTCGATGAAGGGCAGACACGTAGCAGATCCACCCTTCAGATGTT
131 TCGAAGCCTGGCATTCTCCACTTCAAAGAAGAGCAGACACATAACAGATCCACCCTTCAGATATT
* **
50266866 TATACTAAAGT
196 TACACTAAACA
*
50266877 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
*
50266942 TTTCGCGTGCTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
66 TTTCACGTGCTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
* *
50267007 TCGAAGTCTGGCA-TCTCCATTTCAACAG-AGAGCAGACACATAACAGATCTCA-CCTTCAGATA
131 TCGAAGCCTGGCATTCTCCACTTCAA-AGAAGAGCAGACACATAACAGATC-CACCCTTCAGAT-
*
50267069 ATTT-CGCTGAAACA
193 ATTTACACT-AAACA
* * * * * *
50267083 AGATCCAAGATGATTTGGCATTCTTATACTTACAAGGAACAAATCGAAGACATAGTTGATTTCGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
* * *
50267148 TTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAA
66 TTTCACGTGCTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
50267213 TCGAAG
131 TCGAAG
50267219 AAGCAGATTT
Statistics
Matches: 305, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
205 38 0.12
206 267 0.88
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (206 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
TTTCACGTGCTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
TCGAAGCCTGGCATTCTCCACTTCAAAGAAGAGCAGACACATAACAGATCCACCCTTCAGATATT
TACACTAAACA
Found at i:50268969 original size:18 final size:18
Alignment explanation
Indices: 50268918--50269037 Score: 78
Period size: 20 Copynumber: 6.1 Consensus size: 18
50268908 TAACCCTATA
50268918 TATTTATTTCTATTATTAT
1 TATTTATTT-TATTATTAT
* *
50268937 ATATATAAATTTATTATTAT
1 -TAT-TTATTTTATTATTAT
* *
50268957 TATTTGTTTTATTTTTAACCT
1 TATTTATTTTATTATT-A--T
*
50268978 TATTTTTATATTATATATTAT
1 TA--TTTATTTTAT-TATTAT
*
50268999 ATAATTATTTTATTATATAT
1 -TATTTATTTTATTAT-TAT
*
50269019 TATTTATATTATTATTAT
1 TATTTATTTTATTATTAT
50269037 T
1 T
50269038 TATTATATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
18 13 0.17
19 20 0.26
20 23 0.29
21 8 0.10
22 2 0.03
23 9 0.12
24 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TATTTATTTTATTATTAT
Found at i:50268996 original size:7 final size:7
Alignment explanation
Indices: 50268984--50269049 Score: 71
Period size: 7 Copynumber: 9.0 Consensus size: 7
50268974 ACCTTATTTT
50268984 TATATTA
1 TATATTA
50268991 TATATTA
1 TATATTA
50268998 TATAATTA
1 TAT-ATTA
*
50269006 TTTTATTA
1 -TATATTA
50269014 TATATTA
1 TATATTA
50269021 TTTATATTA
1 --TATATTA
50269030 T-TATTA
1 TATATTA
*
50269036 TTTATTA
1 TATATTA
50269043 TATATTA
1 TATATTA
50269050 CTTTTCACGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
6 6 0.12
7 28 0.55
8 8 0.16
9 9 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:50269014 original size:16 final size:15
Alignment explanation
Indices: 50268984--50269054 Score: 85
Period size: 16 Copynumber: 4.7 Consensus size: 15
50268974 ACCTTATTTT
*
50268984 TATATTA-TATATTA
1 TATATTATTTTATTA
50268998 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
50269014 TATATTATTTATATTA
1 TATATTATTT-TATTA
50269030 T-TATTA-TTTATTA
1 TATATTATTTTATTA
50269043 TATATTACTTTT
1 TATATTA-TTTT
50269055 CACGAAATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
13 6 0.12
14 10 0.20
15 16 0.32
16 18 0.36
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:50269022 original size:3 final size:3
Alignment explanation
Indices: 50268977--50269049 Score: 55
Period size: 3 Copynumber: 24.0 Consensus size: 3
50268967 ATTTTTAACC
* *
50268977 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
50269021 TT- TATA TTA TTA TTA TTTA TTA TATA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA
50269050 CTTTTCACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
2 7 0.12
3 37 0.65
4 13 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:50269094 original size:11 final size:11
Alignment explanation
Indices: 50269078--50269237 Score: 54
Period size: 11 Copynumber: 14.6 Consensus size: 11
50269068 TATTTTACAT
50269078 TATTATTTATA
1 TATTATTTATA
50269089 TATTA-TTATTA
1 TATTATTTA-TA
*
50269100 TATT-TTTACTTG
1 TATTATTTA--TA
* * *
50269112 TATAATATATT
1 TATTATTTATA
*
50269123 TATTAATTATA
1 TATTATTTATA
50269134 TA-TA-TTATA
1 TATTATTTATA
*
50269143 TATTATTTTTACA
1 TATTA--TTTATA
* *
50269156 TATACACTTT-CA
1 TAT-TA-TTTATA
50269168 TATTATATTATA
1 TATTAT-TTATA
50269180 -ATTATTT-TA
1 TATTATTTATA
50269189 TATTA--TAT-
1 TATTATTTATA
50269197 TATT-TTTATA
1 TATTATTTATA
*
50269207 CTATTATATATA
1 -TATTATTTATA
* *
50269219 TTTTTATCTATA
1 -TATTATTTATA
50269231 TATTATT
1 TATTATT
50269238 ATCATTAAAG
Statistics
Matches: 112, Mismatches: 19, Indels: 36
0.67 0.11 0.22
Matches are distributed among these distances:
8 5 0.04
9 13 0.12
10 14 0.12
11 41 0.37
12 25 0.22
13 13 0.12
14 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTATTTATA
Found at i:50269096 original size:30 final size:30
Alignment explanation
Indices: 50268978--50269222 Score: 100
Period size: 30 Copynumber: 8.0 Consensus size: 30
50268968 TTTTTAACCT
*
50268978 TATTTTTATATTATATATTATATAATTATTTTA
1 TATTATTAT-TTATATATTAT-T-ATTATTTTA
*
50269011 TTATATATTATTTATATTATTATTATTTATTATA
1 -TAT-TATTATTTATA-TATTATTA-TTATTTTA
* * *
50269045 TATTACTT-TTCACGA-AATATTATTATTTTA
1 TATTA-TTATTTA-TATATTATTATTATTTTA
* *
50269075 CATTATTATTTATATATTATTATTATATTTT
1 TATTATTATTTATATATTATTATTAT-TTTA
* * * *
50269106 TACTTGTATAATATATTTATTAATTATATATATTA
1 TA--T-TATTATTTATATATT-ATTAT-TATTTTA
* * * *
50269141 TA-TATTATTTTTACA-TA-TA-CACTTTCA
1 TATTATTATTTATATATTATTATTA-TTTTA
*
50269168 TATTA-TA-TTATA-ATTATT-TTATATTA
1 TATTATTATTTATATATTATTATTATTTTA
50269194 TATTATT-TTTATACTATTA-TATATATTTT
1 TATTATTATTTATA-TATTATTAT-TATTTT
50269223 TATCTATATA
Statistics
Matches: 157, Mismatches: 30, Indels: 52
0.66 0.13 0.22
Matches are distributed among these distances:
25 1 0.01
26 15 0.10
27 15 0.10
28 5 0.03
29 9 0.06
30 30 0.19
31 18 0.11
32 5 0.03
33 8 0.05
34 28 0.18
35 20 0.13
36 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTATTTATATATTATTATTATTTTA
Found at i:50269177 original size:5 final size:5
Alignment explanation
Indices: 50269167--50269220 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
50269157 ATACACTTTC
* *
50269167 ATATT ATATT ATAATT ATTTT ATATT ATATT AT-TT TTA-T ACTATT ATA-T
1 ATATT ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT
50269216 ATATT
1 ATATT
50269221 TTTATCTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.20
5 25 0.62
6 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:50269191 original size:16 final size:15
Alignment explanation
Indices: 50269170--50269202 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
50269160 CACTTTCATA
50269170 TTATATTATAATTATT
1 TTATATTAT-ATTATT
50269186 TTATATTATATTATT
1 TTATATTATATTATT
50269201 TT
1 TT
50269203 TATACTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:50269203 original size:16 final size:16
Alignment explanation
Indices: 50269170--50269237 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 16
50269160 CACTTTCATA
50269170 TTATATTATAATTA-TT
1 TTATATTAT-ATTATTT
50269186 TTATATTATATTATTTT
1 TTATATTATATTA-TTT
50269203 TATACTATTATATATATTT
1 T-TA-TATTATAT-TATTT
*
50269222 TTATCTATATATTATT
1 TTATAT-TATATTATT
50269238 ATCATTAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 4 0.09
16 9 0.20
17 9 0.20
18 9 0.20
19 12 0.27
20 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTATATTATTT
Found at i:50269205 original size:21 final size:20
Alignment explanation
Indices: 50269167--50269236 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
50269157 ATACACTTTC
**
50269167 ATATTATATTATAATTATTTT
1 ATATTATATTATTTTTA-TTT
50269188 ATATTATATTATTTTTA--T
1 ATATTATATTATTTTTATTT
50269206 ACTATTATATATATTTTTATCTAT
1 A-TATTATAT-TATTTTTAT-T-T
50269230 ATATTAT
1 ATATTAT
50269237 TATCATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 8 0.20
21 15 0.37
23 6 0.15
24 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATATTATTTTTATTT
Found at i:50269225 original size:26 final size:28
Alignment explanation
Indices: 50269187--50269239 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
50269177 ATAATTATTT
* *
50269187 TATATTATATTATTTTTATACTATTATA
1 TATATTATATTATCTATATACTATTATA
*
50269215 TATATT-T-TTATCTATATATTATTAT
1 TATATTATATTATCTATATACTATTAT
50269240 CATTAAAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TATATTATATTATCTATATACTATTATA
Found at i:50269394 original size:21 final size:23
Alignment explanation
Indices: 50269369--50269427 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
50269359 ATCATTAATT
*
50269369 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
50269390 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
50269414 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
50269428 AATATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:50269418 original size:23 final size:22
Alignment explanation
Indices: 50269371--50269447 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 22
50269361 CATTAATTAC
*
50269371 TTATTTTATAT-TATTCTA-AA
1 TTATTTTATATATATTATATAA
50269391 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATATAA
*
50269415 TTATTTTAT-TATA-AATATAA
1 TTATTTTATATATATTATATAA
* *
50269435 TTTTTTTACATAT
1 TTATTTTATATAT
50269448 TTGGTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.27
21 11 0.23
22 12 0.25
23 10 0.21
24 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:50271115 original size:98 final size:99
Alignment explanation
Indices: 50270947--50271185 Score: 300
Period size: 99 Copynumber: 2.4 Consensus size: 99
50270937 TACTGTATAT
* * *
50270947 CAAGTATGCCACATAATATGTTAACACTTTTCATACCTAATTCATTCCCATTCATTTTCAATATA
1 CAAGTATGCAACATAATATGTTAACACTTTT-ATACCTGATTCATTCCCATTCATTTTCAACATA
* * * * * *
50271012 ATAAGTGTAGACAC-TTATCGATCATATGGAATAA
65 ATAAGTGAAAACACTTTAGCAATCACATAGAATAA
* * ** **
50271046 CAAGTACGCAACATAATATGTTAATACTTTTATACCTGATTCATTTTCATTCATTTTTGACATAA
1 CAAGTATGCAACATAATATGTTAACACTTTTATACCTGATTCATTCCCATTCATTTTCAACATAA
50271111 TAAGTGAAAACACTTTAGCAATCACATAGAATAA
66 TAAGTGAAAACACTTTAGCAATCACATAGAATAA
* * *
50271145 CAAGTATGCAACATGATATGTTAACACTTTCATATCTGATT
1 CAAGTATGCAACATAATATGTTAACACTTTTATACCTGATT
50271186 GTTTTATAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
98 39 0.33
99 80 0.67
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (99 bp):
CAAGTATGCAACATAATATGTTAACACTTTTATACCTGATTCATTCCCATTCATTTTCAACATAA
TAAGTGAAAACACTTTAGCAATCACATAGAATAA
Found at i:50271863 original size:29 final size:29
Alignment explanation
Indices: 50271821--50271878 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
50271811 CATTTTCACT
* *
50271821 ACTTAATACAATGTTGGTAGCTCTAGCAA
1 ACTTAATACAATGTGGGTAGATCTAGCAA
50271850 ACTTAATACAATGTGGGTAGATCTAGCAA
1 ACTTAATACAATGTGGGTAGATCTAGCAA
50271879 TAGTCTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (29 bp):
ACTTAATACAATGTGGGTAGATCTAGCAA
Found at i:50278471 original size:43 final size:44
Alignment explanation
Indices: 50278410--50278502 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
50278400 TCCTAATTGG
50278410 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
50278453 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
50278497 -AAAATA
1 GAAAATA
50278503 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:50283649 original size:40 final size:40
Alignment explanation
Indices: 50283590--50283717 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
50283580 TGAATGATAC
* * *
50283590 CCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTCTAT
* * * *
50283630 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTA-CCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTC-TAT
* * * * *
50283670 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTCTAT
50283710 CC-GGCTAA
1 CCGGGCTAA
50283718 ATTCGAAGAG
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
39 6 0.09
40 63 0.91
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTCTAT
Found at i:50290270 original size:17 final size:17
Alignment explanation
Indices: 50290248--50290280 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50290238 AAAAAATGGT
50290248 CTCATCCATGCCCCCCC
1 CTCATCCATGCCCCCCC
50290265 CTCATCCATGCCCCCC
1 CTCATCCATGCCCCCC
50290281 TTGCCGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.64, G:0.06, T:0.18
Consensus pattern (17 bp):
CTCATCCATGCCCCCCC
Found at i:50291971 original size:40 final size:40
Alignment explanation
Indices: 50291849--50291976 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
50291839 TGAATGATAC
* * * *
50291849 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * ** *
50291889 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
50291929 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
50291969 CC-GGCTAA
1 CCGGGCTAA
50291977 ATTCCGAAGA
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
39 5 0.07
40 64 0.93
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:50294939 original size:43 final size:43
Alignment explanation
Indices: 50294878--50294962 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
50294868 TCCTAATTGG
50294878 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* * *
50294921 GAAAATAGTTCCCTTATTCTAGTAATCTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
50294963 TAAAAACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.29
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:50296530 original size:15 final size:15
Alignment explanation
Indices: 50296510--50296540 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50296500 CTCCAATAAC
50296510 CCTTGCAACCAATGG
1 CCTTGCAACCAATGG
50296525 CCTTGCAACCAATGG
1 CCTTGCAACCAATGG
50296540 C
1 C
50296541 AGTCCTCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (15 bp):
CCTTGCAACCAATGG
Found at i:50300122 original size:21 final size:22
Alignment explanation
Indices: 50300098--50300142 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
50300088 TCTGACTTAC
* *
50300098 TAATTTTAAATTTATA-TTATT
1 TAATTTCAAATATATATTTATT
*
50300119 TAATTTCATATATATATTTATT
1 TAATTTCAAATATATATTTATT
50300141 TA
1 TA
50300143 CCAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATTTCAAATATATATTTATT
Found at i:50301736 original size:17 final size:18
Alignment explanation
Indices: 50301700--50301737 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50301690 TAGAAATTTC
*
50301700 AAATATTTTTAAATTAAA
1 AAATATTCTTAAATTAAA
*
50301718 AAATATTCTTGAA-TAAA
1 AAATATTCTTAAATTAAA
50301735 AAA
1 AAA
50301738 GGATCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATATTCTTAAATTAAA
Found at i:50302515 original size:30 final size:30
Alignment explanation
Indices: 50302481--50302539 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
50302471 TTTTATTATT
* *
50302481 AATTTTGTTATTATTTTAAAGATATTTGTG
1 AATTTTATTATTATCTTAAAGATATTTGTG
*
50302511 AATTTTATTATTATCTTAGAGATATTTGT
1 AATTTTATTATTATCTTAAAGATATTTGT
50302540 TTGTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (30 bp):
AATTTTATTATTATCTTAAAGATATTTGTG
Found at i:50302901 original size:22 final size:22
Alignment explanation
Indices: 50302876--50302918 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50302866 TATCCAAACA
50302876 ATAACA-ATAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
* *
50302898 ATAATAGAAAAATGGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
50302919 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:50305414 original size:46 final size:46
Alignment explanation
Indices: 50305316--50305490 Score: 135
Period size: 46 Copynumber: 3.7 Consensus size: 46
50305306 GTAAGGTGCC
* * *
50305316 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTAGTAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AGCT
*
50305364 GATGCATCTCCCAGACAT-GTCTTACACTGGCTTA-ACTCTCGAGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACA-TCTCGA-GCT
* * * * * * *
50305410 GATGCATGTCCTAAACAT-GTCGTACACTAGCTCT-CGTCTCAATACT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGA-GCT
*
50305456 AATGCGATGTCCCAGACATGGTCTTACACTGGCTT
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCTT
50305491 TCATAATGTG
Statistics
Matches: 102, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 2 0.02
46 56 0.55
47 28 0.27
48 16 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGCT
Found at i:50310648 original size:29 final size:28
Alignment explanation
Indices: 50310609--50310743 Score: 183
Period size: 29 Copynumber: 5.0 Consensus size: 28
50310599 CACTTTGTGC
50310609 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
50310638 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
50310667 TATT-TGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
50310694 GATACTGGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
50310719 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
50310744 CTAGTGTGTT
Statistics
Matches: 98, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.18
24 1 0.01
25 3 0.03
26 2 0.02
27 12 0.12
28 29 0.30
29 33 0.34
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Done.