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 19 of 425
Found at i:5087677 original size:20 final size:18
Alignment explanation
Indices: 5087603--5087678 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 18
5087593 TTTGTAAAAA
*
5087603 ATAATATATAATAAATGAT
1 ATAATATAAAAT-AATGAT
5087622 AATAATATAAAATAATG-T
1 -ATAATATAAAATAATGAT
*
5087640 AT-A-ATAAAATAATTAT
1 ATAATATAAAATAATGAT
*
5087656 ATAATATATAATATAAAGAT
1 ATAATATA-AA-ATAATGAT
5087676 ATA
1 ATA
5087679 TAAACATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.21
16 4 0.09
17 3 0.06
18 4 0.09
19 6 0.13
20 20 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
ATAATATAAAATAATGAT
Found at i:5091308 original size:220 final size:220
Alignment explanation
Indices: 5090946--5091514 Score: 958
Period size: 220 Copynumber: 2.6 Consensus size: 220
5090936 TGACCTGTAG
* * *
5090946 GTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCCCTGTATTGTCAGAGAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
* * *
5091011 AAACAGATTTGGCATCTCTATATTCGATGGAGAGAAGATCGAAGACATAGCAGATCTAACCTTCG
66 AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
*
5091076 GATGTTTTCACATCGAAGTAGATCCAAGATGATTTGACATCCTTGCGTTGACAAGGAGCAGATCG
131 GATGTCTTCACATCGAAGTAGATCCAAGATGATTTGACATCCTTGCGTTGACAAGGAGCAGATCG
*
5091141 AAGACATAGCAGATTTGGCTTTCAC
196 AAGACATAACAGATTTGGCTTTCAC
* * *
5091166 GTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTATTTTCAGAGAACAAATCAAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
* *
5091231 AAACAGATTTGGCTTCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
66 AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
* *
5091296 GTTGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCG
131 GATGTCTTCACATCGAAGTAGATCCAAGATGATTTGACATCCTTGCGTTGACAAGGAGCAGATCG
5091361 AAGACATAACAGATTTGGCTTTCAC
196 AAGACATAACAGATTTGGCTTTCAC
* ** *
5091386 ATGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
*
5091451 AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTC
66 AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
5091515 ATTGAAGCAG
Statistics
Matches: 324, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
220 324 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (220 bp):
GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
GATGTCTTCACATCGAAGTAGATCCAAGATGATTTGACATCCTTGCGTTGACAAGGAGCAGATCG
AAGACATAACAGATTTGGCTTTCAC
Found at i:5091564 original size:78 final size:78
Alignment explanation
Indices: 5091456--5091811 Score: 507
Period size: 78 Copynumber: 4.4 Consensus size: 78
5091446 CGAAGAAACA
* * * *
5091456 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
*
5091521 GCAGATTCAAGAT
66 GCAGATCCAAGAT
* *
5091534 GACTTGGCATATCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
5091599 GCAGATCCAAGAT
66 GCAGATCCAAGAT
5091612 GATTTGGCATCTCTGTATTAAACGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
1 GATTTGGCATCTC-----T--A--TATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
5091677 TTCATTGAAGCAGATCCAAGAT
57 TTCATTGAAGCAGATCCAAGAT
* * * *
5091699 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
5091763 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
5091777 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATC
5091812 TGACCTTCAT
Statistics
Matches: 255, Mismatches: 13, Indels: 20
0.89 0.05 0.07
Matches are distributed among these distances:
77 1 0.00
78 175 0.69
82 1 0.00
83 1 0.00
85 1 0.00
87 76 0.30
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:5091670 original size:165 final size:165
Alignment explanation
Indices: 5091471--5091796 Score: 546
Period size: 165 Copynumber: 2.0 Consensus size: 165
5091461 GGCATCTCCA
* * *
5091471 TATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATTCAAGATGA
1 TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
* *
5091536 CTTGGCATATCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGAAG
66 CTTGGCATATCTATATTAGACGGGGAGCAGATCAAAGACACAACAGAT-TAGACCTTCATTGAAG
5091600 CAGATCCAAGATGATTTGGCATCTCTGTATTAAACG
130 CAGATCCAAGATGATTTGGCATCTCTGTATTAAACG
*
5091636 TATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
1 TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
* * * *
5091701 TTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTAGACCTTCATTGAAGC
66 CTTGGCATATCTATATTAGACGGGGAGCAGATCAAAGACACAACAGATTAGACCTTCATTGAAGC
5091766 AGATCCAAGATGATTTGGCATCTCTGTATTA
131 AGATCCAAGATGATTTGGCATCTCTGTATTA
5091797 GACGGGGAGC
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
164 1 0.01
165 149 0.99
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (165 bp):
TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
CTTGGCATATCTATATTAGACGGGGAGCAGATCAAAGACACAACAGATTAGACCTTCATTGAAGC
AGATCCAAGATGATTTGGCATCTCTGTATTAAACG
Found at i:5091960 original size:45 final size:45
Alignment explanation
Indices: 5091835--5091989 Score: 222
Period size: 45 Copynumber: 3.5 Consensus size: 45
5091825 TTTACATCGA
* * *
5091835 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* ** **
5091880 AGTAGATTGAAGA-AGTAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
5091924 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
*
5091969 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAACAGAT
5091990 ATCGCCTTCT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 37 0.39
45 59 0.61
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:5092363 original size:19 final size:19
Alignment explanation
Indices: 5092339--5092412 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
5092329 ATAATCTTCA
5092339 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5092358 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5092377 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5092395 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5092413 AGATATGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5092386 original size:37 final size:38
Alignment explanation
Indices: 5092339--5092419 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
5092329 ATAATCTTCA
5092339 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
5092377 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
5092413 A-GATATG
1 ATGATATG
5092420 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:5092438 original size:22 final size:22
Alignment explanation
Indices: 5092339--5092435 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 22
5092329 ATAATCTTCA
5092339 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5092358 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5092377 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5092395 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5092417 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5092436 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
18 18 0.25
19 33 0.46
22 8 0.11
23 12 0.17
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5095359 original size:3 final size:3
Alignment explanation
Indices: 5095346--5095422 Score: 136
Period size: 3 Copynumber: 25.3 Consensus size: 3
5095336 AAGCCATATA
5095346 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5095392 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5095423 GGACCAATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5095515 original size:21 final size:23
Alignment explanation
Indices: 5095472--5095522 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
5095462 TAAAAGAGGG
5095472 TAATAAACAAATAGATGAATAGA
1 TAATAAACAAATAGATGAATAGA
5095495 TAATAATA-AAATA-AT-AATAGA
1 TAATAA-ACAAATAGATGAATAGA
5095516 TAATAAA
1 TAATAAA
5095523 ATACCAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 2 0.07
23 11 0.41
24 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (23 bp):
TAATAAACAAATAGATGAATAGA
Found at i:5095531 original size:18 final size:17
Alignment explanation
Indices: 5095494--5095536 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
5095484 AGATGAATAG
*
5095494 ATAATAATAAAATAATA
1 ATAATAATAAAATAACA
*
5095511 ATAGATAATAAAATACCA
1 ATA-ATAATAAAATAACA
5095529 ATAATAAT
1 ATAATAAT
5095537 GAAGGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAATAATAAAATAACA
Found at i:5095531 original size:21 final size:21
Alignment explanation
Indices: 5095489--5095534 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5095479 CAAATAGATG
*
5095489 AATAGATAATAATAAAATAAT
1 AATAGATAATAATAAAACAAT
*
5095510 AATAGATAATAA-AATACCAAT
1 AATAGATAATAATAA-AACAAT
5095531 AATA
1 AATA
5095535 ATGAAGGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (21 bp):
AATAGATAATAATAAAACAAT
Found at i:5095704 original size:36 final size:38
Alignment explanation
Indices: 5095642--5095722 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 38
5095632 ATGAATAATG
*
5095642 TATAAATAGAAAAGTAAATTAATAAACAAATGAATAAA
1 TATAAATAGAAAAGTAAATTAATAAACAAATAAATAAA
*
5095680 -ATAAA-AGAATAA-TAAA-TAACTAAACAAGTAAATAAA
1 TATAAATAGAA-AAGTAAATTAA-TAAACAAATAAATAAA
5095716 TATAAAT
1 TATAAAT
5095723 GGATAAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
35 3 0.08
36 22 0.59
37 12 0.32
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (38 bp):
TATAAATAGAAAAGTAAATTAATAAACAAATAAATAAA
Found at i:5100678 original size:88 final size:86
Alignment explanation
Indices: 5100314--5101690 Score: 311
Period size: 88 Copynumber: 15.6 Consensus size: 86
5100304 TAAAAATTAT
** * * * *
5100314 TATTTATTTTATTTCATTTTCAAGGCACTTGGGCTTGTGT-TGGTGCTGAATAATTTTTTTTTTA
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTG---CA--TTTTTTTTA
* *
5100378 ATTTTTC-AGGATA-TATAATAATCAC
61 A-TTTTCGAGAAAATTATAATAATCAC
* * ** ** *
5100403 AATTTATTTCATTTCATTTTT---TTATCAGGGCTTGAGTCTGGTACTGCATTTTTTTTAAATTT
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTGCATTTTTTTT-AA-TT
* *
5100465 TTCGAGATAATTACAATAATCAC
64 TTCGAGAAAATTATAATAATCAC
* * * * * * *
5100488 TATTTATTTCATTTCATTTTTGAGGGATTTCGGTTTGAGCCTGGCTGCTACAATAATTCTTTTAA
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGG-TGCTGC-AT--TTTTTTTAA
* *
5100553 TTTTCTA-ATATAAATATAATAATCAC
62 TTTTCGAGA-A-AATTATAATAATCAC
* * * *
5100579 TATTTATTTTATTTTATTTTTGAGGTATTTGGGCTTGAGTCTGGTGTTGCAGTTTTTTTTAGTTT
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTGCA-TTTTTTTTAATTT
5100644 TACGAGAAAATTATAATAATCAC
65 T-CGAGAAAATTATAATAATCAC
* * * * * * *
5100667 TAATTATTTTATTTCATTTTCGAGGAACTTGAGCTTGAGTATGGTACTGTAATATTTAGTTTTTT
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTG---CA--T--TTTTTT
* *** *
5100732 TAATTTTTTTGAGATGGTTATAATAATAAC
59 TAA--TTTTCGAGAAAATTATAATAATCAC
* * * * ** * * * **
5100762 TATTTATTTCATTTCGTTTTCTG-GGCACTTGAACTTGAGTATGATGCTGTAAATTTTTT--TTT
1 TATTTATTTTATTTCATTTT-TGAGGAATTTGGGCTTGAGTCTGGTGCTGCATTTTTTTTAATTT
* * *
5100824 T-G-GAATAATAATAATACATTATT
65 TCGAGAA-AATTATAATA-ATCA-C
* * * * * *
5100847 TATTTCATTTCATTTTATTTTTG-GGAAATTTGGGCTCGAATTTGGGGCTGCAATAAATATTTTT
1 TATTT-ATTTTATTTCATTTTTGAGG-AATTTGGGCTTGAGTCTGGTGCTGC-----AT-TTTTT
* * *
5100911 TTAATTTTTGGGATAATTATAATAATCAC
58 TTAATTTTCGAGAAAATTATAATAATCAC
* * * * * * * *
5100940 TTTTTATTTCATTTCATTTTT-AGGGCACTTCGACTTGAGTCTGATACTGCAATAATTTATTTTC
1 TATTTATTTTATTTCATTTTTGA-GGAATTTGGGCTTGAGTCTGGTGCTGC-AT--TTT-TTTT-
* *
5101004 AA---TCAAGAAAATTATAATAATAAC
60 AATTTTCGAGAAAATTATAATAATCAC
* * * * * * * * *
5101028 TATTTATTTCATTTCATTTTT-AGGGACTGGGGTTTGAGTATGGTGCTGTGAAAAGTTTATTT--
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGC--TG--CATTTTTTTTAA
* * * *
5101090 GTTTAG-GATAATTATAATAATAAC
62 TTTTCGAGAAAATTATAATAATCAC
** * * * * * *
5101114 TATTTATTTTGTTTCATTTCATTTTCAATGAATTTGGGCTTCA-ACACGGTACTGCAATAAAATT
1 TATTTA---T-TTT-ATTTCATTTTTGAGGAATTTGGGCTTGAGTC-TGGTGCTGC-AT---TTT
** * * *
5101178 TTAAAATTTTCTAGATAATTATAATAATAAC
56 TTTTAATTTTCGAGAAAATTATAATAATCAC
* * * * * *
5101209 TATTTATTTTATTTCA-TTTTCAAGACACTTGGG-TTGGAGTATGGTGTTGTAATTTTTTTT-AT
1 TATTTATTTTATTTCATTTTTGAGGA-ATTTGGGCTT-GAGTCTGGTGCTG-CATTTTTTTTAAT
5101271 TTT-GAAGATAAA-TATAATAATCAC
63 TTTCG-AGA-AAATTATAATAATCAC
* * * *
5101295 TATTTATTTCATTTTA-TTTTG-GGAATTTAGGCTTGAGTCT-GTGACTGCAATAAATATTTTTA
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTG-CTGC-AT---TTTTTTTA
*
5101357 ATTTTC-AGATATAATTATAATAATTAGC
61 ATTTTCGAGA-A-AATTATAATAATCA-C
* * * * * * * * * *
5101385 TTCTTTTTTTTAATTTCACTTTCGATGCATTTGGGTTTGAGTCTAGT--T---TTGTTTTT-CTT
1 -TATTTATTTT-ATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTGCATTTTTTTTAATT
* * *
5101444 TTCCAAGAAAATTATAAAAATCAT
64 TT-CGAGAAAATTATAATAATCAC
* * ** * ** ***
5101468 TATTTATTTCT-CTTCATGTTT-AGGACCCTTGGACTTGAGTCTTATGCTGCAACAATTTTT--T
1 TATTTATTT-TATTTCATTTTTGAGGA-ATTTGGGCTTGAGTCTGGTGCTGC-ATTTTTTTTAAT
* * *
5101529 TTTGGGGATAATTATAATAATCAC
63 TTTCGAGAAAATTATAATAATCAC
* ** * * * *** *
5101553 TATTTATTTCATTTCATTTGCGAGGCACTTGGACTTG-GTCAATTGCTGCAATATATTTATTAAA
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTGC-AT-T-TTT-TTTAA
* *
5101617 ATTTCTGA-AATAATTATAATAATTAC
62 TTTTC-GAGAA-AATTATAATAATCAC
* ** * * *
5101643 TATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTAAGTCTAGTGCT
1 TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCT
5101691 ATAGTGCTAT
Statistics
Matches: 943, Mismatches: 237, Indels: 214
0.68 0.17 0.15
Matches are distributed among these distances:
80 2 0.00
81 19 0.02
82 17 0.02
83 21 0.02
84 52 0.06
85 92 0.10
86 110 0.12
87 51 0.05
88 136 0.14
89 57 0.06
90 91 0.10
91 85 0.09
92 69 0.07
93 10 0.01
94 33 0.03
95 91 0.10
96 7 0.01
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.47
Consensus pattern (86 bp):
TATTTATTTTATTTCATTTTTGAGGAATTTGGGCTTGAGTCTGGTGCTGCATTTTTTTTAATTTT
CGAGAAAATTATAATAATCAC
Found at i:5100769 original size:95 final size:92
Alignment explanation
Indices: 5100654--5100824 Score: 227
Period size: 95 Copynumber: 1.8 Consensus size: 92
5100644 TACGAGAAAA
* * * *
5100654 TTATAATAATCACTAATTATTTTATTTCATTTTC-GAGGAACTTGAGCTTGAGTATGGTACTGTA
1 TTATAATAATAACTAATTATTTCATTTCATTTTCTG-GGAACTTGAACTTGAGTATGATACTGTA
5100718 ATATTTAGTTTTTTTAATTTTTTTGAGATGG
65 A-ATTT--TTTTTTTAATTTTTTTGAGATGG
* * * *
5100749 TTATAATAATAACTATTTATTTCATTTCGTTTTCTGGGCACTTGAACTTGAGTATGATGCTGTAA
1 TTATAATAATAACTAATTATTTCATTTCATTTTCTGGGAACTTGAACTTGAGTATGATACTGTAA
5100814 ATTTTTTTTTT
66 ATTTTTTTTTT
5100825 GGAATAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 7 0.10
94 4 0.06
95 55 0.82
96 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (92 bp):
TTATAATAATAACTAATTATTTCATTTCATTTTCTGGGAACTTGAACTTGAGTATGATACTGTAA
ATTTTTTTTTTAATTTTTTTGAGATGG
Found at i:5101584 original size:85 final size:88
Alignment explanation
Indices: 5101453--5101685 Score: 205
Period size: 90 Copynumber: 2.6 Consensus size: 88
5101443 TTTCCAAGAA
* * * * *
5101453 AATTATAAAAATCATTATTTATTTC-TCTTCATGTT-TAGGACCCTTGGACTTGAGTCTTA-TGC
1 AATTATAATAATCACTATTTATTTCAT-TTCAT-TTCAAGG-CACTTGGACTTGAGTCTAATTGC
**
5101515 TGCAACA-ATTT-TT-TTT-TGGGGAT
63 TGCAACATATTTATTATTTCT-GAAAT
*
5101538 AATTATAATAATCACTATTTATTTCATTTCATTTGCGAGGCACTTGGACTTG-GTC-AATTGCTG
1 AATTATAATAATCACTATTTATTTCATTTCATTT-CAAGGCACTTGGACTTGAGTCTAATTGCTG
*
5101601 CAATATATTTATTAAAATTTCTGAAAT
65 CAACATATTTATT---ATTTCTGAAAT
* * * *
5101628 AATTATAATAATTACTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTAAGTCTA
1 AATTATAATAATCACTATTTATTTCATTTCA-TTTCAAGGCACTTGGACTTGAGTCTA
5101686 GTGCTATAGT
Statistics
Matches: 121, Mismatches: 13, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
83 1 0.01
84 14 0.12
85 43 0.36
86 6 0.05
90 49 0.40
91 7 0.06
92 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (88 bp):
AATTATAATAATCACTATTTATTTCATTTCATTTCAAGGCACTTGGACTTGAGTCTAATTGCTGC
AACATATTTATTATTTCTGAAAT
Found at i:5102395 original size:2 final size:2
Alignment explanation
Indices: 5102388--5102423 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5102378 ATACATGTAT
*
5102388 TC TC TC TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5102424 GATTGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:5111245 original size:33 final size:33
Alignment explanation
Indices: 5111203--5111266 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
5111193 GGGAAATTGG
5111203 GTTTATATAATATATATCTCAAAGTATGGTCGA
1 GTTTATATAATATATATCTCAAAGTATGGTCGA
5111236 GTTTATATAATATATATCTCAAAGTATGGTC
1 GTTTATATAATATATATCTCAAAGTATGGTC
5111267 CATGTCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (33 bp):
GTTTATATAATATATATCTCAAAGTATGGTCGA
Found at i:5111559 original size:2 final size:2
Alignment explanation
Indices: 5111552--5111584 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5111542 CTTGAAAACT
*
5111552 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5111585 TTTCTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5112087 original size:2 final size:2
Alignment explanation
Indices: 5112080--5112117 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5112070 TTTGATCTCT
5112080 TA TA TA TA 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 TA TA TA TA
5112118 GTTTTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5117098 original size:40 final size:41
Alignment explanation
Indices: 5117036--5117190 Score: 181
Period size: 40 Copynumber: 3.9 Consensus size: 41
5117026 GAGCATTTGA
* * *
5117036 ATCATATCCGGGCTAAGTCCCGAAGGCATTTATGCCAG-TG
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATG
* * * * *
5117076 ATTATATCCGGGCTAAGACCCGAAAGCATTCGTGCGAGTTG
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATG
5117117 -TCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATG
* * * *
5117156 ACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGC
5117191 TTGTGGTTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 96 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATG
Found at i:5136333 original size:17 final size:18
Alignment explanation
Indices: 5136311--5136353 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
5136301 TTAGCAGTTT
5136311 CAAAAAAAAAAGAAAA-A
1 CAAAAAAAAAAGAAAAGA
5136328 CAAAAAAAAAAGAAAAGA
1 CAAAAAAAAAAGAAAAGA
5136346 -AAAAAAAA
1 CAAAAAAAA
5136354 TAGGAGAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAAAGAAAAGA
Found at i:5137886 original size:177 final size:177
Alignment explanation
Indices: 5137578--5138067 Score: 732
Period size: 177 Copynumber: 2.8 Consensus size: 177
5137568 TCGATGAATT
* * * *
5137578 TACGAGCCTTAACCCCTTAGGCAGTAGGGTAACAGGCTGACAATTACATATCTTATCTCCATGTA
1 TACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTA
* *
5137643 TCAGCTAGGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
66 TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
**
5137708 AGCCACCGGCCTTATCTCTCTG-AGATAGTAAGAGAGCAGGTTGAAGA
131 AGCCACCGGCCTTATCTCTCTGAAG-TAACAAGAGAGCAGGTTGAAGA
* *
5137755 TACGAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTACAGATCTTATCTCCATGTA
1 TACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTA
* ** * * *
5137820 TCGGCTATGGAACAGATCGAAAATGGTAAGTTTTATCTCCATGTATCGG-TCATGTAGCAAATTT
66 TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT-ATGGAGCAGATTT
*
5137884 TAGCCACCGGCCTTATCTCTCTGAAGTAACAAGAGAGCATGTTGAAGA
130 TAGCCACCGGCCTTATCTCTCTGAAGTAACAAGAGAGCAGGTTGAAGA
* * *
5137932 TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAGTACAGATCTTATCTCCATGTA
1 TACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTA
* * * *
5137997 TCGGCTATGGAGTAGATTGAAAATGACGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATTTT
66 TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
5138062 AGCCAC
131 AGCCAC
5138068 TAGTCTTATC
Statistics
Matches: 278, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.00
177 274 0.99
178 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (177 bp):
TACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTA
TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
AGCCACCGGCCTTATCTCTCTGAAGTAACAAGAGAGCAGGTTGAAGA
Found at i:5138219 original size:134 final size:134
Alignment explanation
Indices: 5137979--5138240 Score: 384
Period size: 134 Copynumber: 2.0 Consensus size: 134
5137969 TGGAAAGTAC
* * * * *
5137979 AGATCTTATCTCCATGTATCGGCTATGGAGTAGATTGAAAATGACGAGTCTTATCTCCATGTATT
1 AGATCTTATCTCCATATATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATT
* * *
5138044 GGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGATTGAAA
66 GACTATGGAGCAGATTTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGAG-AGCAGATTGAAA
5138108 ATTAT
130 ATTAT
* **
5138113 AGATCTTATCTCCATATATCGGTTATGGAGCAAATCGAAAATGGTAAGTCTTATCTCCATGTATT
1 AGATCTTATCTCCATATATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATT
*
5138178 GACTATGGAGCAGATTTTAGCCACCAGCCTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAA
66 GACTATGGAGCAGATTTTAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGAGAGCAGATTGAA
5138241 GATACAAGTC
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 2 0.02
134 111 0.97
135 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (134 bp):
AGATCTTATCTCCATATATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATT
GACTATGGAGCAGATTTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGAGAGCAGATTGAAAA
TTAT
Found at i:5138287 original size:178 final size:173
Alignment explanation
Indices: 5138069--5138473 Score: 587
Period size: 178 Copynumber: 2.3 Consensus size: 173
5138059 TTTAGCCACT
* *
5138069 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAAATTATAGATCTTATCTCCATATATCG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCG
* * * *
5138134 GTTATGGAGCAAATCGAAAATGGTAAGTCTTATCTCCATGTATTGACTATGGAGCAGATTTTAGC
66 GCTATGGAGCAAATCAAAAATGGCAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGC
*
5138199 CACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
131 CACCAGCCTTATCTCTCTGA-G--G--AGAGAGCAAGTTGAAGATACA
* * *
5138247 AGTCTTATCTTCCTGAAGTAGCAAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCG
** * * *
5138312 GCTATGGATTAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
66 GCTATGGAGCAAATCAAAAATGGCAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGC
5138377 CACCAGCCTTATCTCTCTGAGGAGAGAGCAAGTTGAAGATACA
131 CACCAGCCTTATCTCTCTGAGGAGAGAGCAAGTTGAAGATACA
* * *
5138420 AGTCTTATCTTCTTGAGGTAGTACA-GAAGCAGACTGAAAATTACAGACCTTATC
1 AGTCTTATCTTCCTGAGGTAGCA-AGGAAGCAGACTGAAAATTACAGATCTTATC
5138474 CTTATGTATC
Statistics
Matches: 206, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
173 67 0.33
174 1 0.00
175 1 0.00
177 1 0.00
178 136 0.66
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (173 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCG
GCTATGGAGCAAATCAAAAATGGCAAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGC
CACCAGCCTTATCTCTCTGAGGAGAGAGCAAGTTGAAGATACA
Found at i:5139882 original size:17 final size:17
Alignment explanation
Indices: 5139852--5139884 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5139842 TTCCAAACGC
5139852 TTTCATATACTATTATA
1 TTTCATATACTATTATA
5139869 TTTCTATATA-TATTAT
1 TTTC-ATATACTATTAT
5139885 CTATATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCATATACTATTATA
Found at i:5140109 original size:15 final size:15
Alignment explanation
Indices: 5140070--5140109 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5140060 ATTTTAAAAT
*
5140070 TTATTTGTATATTAC
1 TTATTTATATATTAC
5140085 -TATTTAATATATTAC
1 TTATTT-ATATATTAC
5140100 TTATTTATAT
1 TTATTTATAT
5140110 TTTCCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (15 bp):
TTATTTATATATTAC
Found at i:5141239 original size:2 final size:2
Alignment explanation
Indices: 5141232--5141260 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5141222 TGGTTTTGAC
5141232 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 T
5141261 TCCTGATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5142878 original size:16 final size:16
Alignment explanation
Indices: 5142859--5142893 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5142849 AACCTAACCC
*
5142859 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
5142874 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
5142890 AAAA
1 AAAA
5142894 CCTACCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:5142907 original size:15 final size:16
Alignment explanation
Indices: 5142889--5142924 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5142879 AAAGAAAAAG
5142889 AAAAACCT-ACCCAAA
1 AAAAACCTAACCCAAA
5142904 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
5142920 AAAAA
1 AAAAA
5142925 AAAAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:5142908 original size:16 final size:17
Alignment explanation
Indices: 5142884--5142925 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
5142874 AAAAAAAAGA
5142884 AAAAGAAAAACCT-ACCC
1 AAAA-AAAAACCTAACCC
5142901 -AAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
5142917 AAAAAAAAA
1 AAAAAAAAA
5142926 AAAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.35
16 7 0.30
17 8 0.35
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:5142921 original size:42 final size:43
Alignment explanation
Indices: 5142842--5142938 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 43
5142832 TAAGCCCCCC
* *
5142842 AAAA-AAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAGA
1 AAAAGAAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAAAA
* *
5142884 AAAAGAAAAACCT-ACCCAAAAAAAACCTAACCCAAAAAAAAAAA
1 AAAAGAAAAACCTAACCCAAAAAAAAAC-AA-ACAAAAAAAAAAA
5142928 AAGAAGAAAAA
1 AA-AAGAAAAA
5142939 GAAAAACCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 17 0.36
43 10 0.21
44 12 0.26
45 8 0.17
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.03
Consensus pattern (43 bp):
AAAAGAAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAAAA
Found at i:5143642 original size:2 final size:2
Alignment explanation
Indices: 5143635--5143660 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5143625 ATGTACATAC
5143635 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
5143661 TTGTACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5147588 original size:19 final size:21
Alignment explanation
Indices: 5147566--5147609 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
5147556 ACCTCAGCAA
5147566 AAAGTTACT-GAATAT-AGGC
1 AAAGTTACTCGAATATGAGGC
*
5147585 AAAG-TATTCGAATATGAGGC
1 AAAGTTACTCGAATATGAGGC
5147605 AAAGT
1 AAAGT
5147610 ATTCGTCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (21 bp):
AAAGTTACTCGAATATGAGGC
Found at i:5147606 original size:20 final size:19
Alignment explanation
Indices: 5147575--5147614 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
5147565 AAAAGTTACT
5147575 GAATATAGGCAAAGTATTC
1 GAATATAGGCAAAGTATTC
5147594 GAATATGAGGCAAAGTATTC
1 GAATAT-AGGCAAAGTATTC
5147614 G
1 G
5147615 TCCATAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (19 bp):
GAATATAGGCAAAGTATTC
Found at i:5149025 original size:14 final size:14
Alignment explanation
Indices: 5149008--5149040 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5148998 AACCTAACCC
5149008 AAAAAAA-AACAAAG
1 AAAAAAAGAA-AAAG
5149022 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
5149036 AAAAA
1 AAAAA
5149041 CTACCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:5149053 original size:14 final size:15
Alignment explanation
Indices: 5149036--5149069 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5149026 AAAGAAAAAG
5149036 AAAAACT-ACCCAAA
1 AAAAACTAACCCAAA
*
5149050 AAAACCTAACCCAAA
1 AAAAACTAACCCAAA
5149065 AAAAA
1 AAAAA
5149070 AAAAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACTAACCCAAA
Found at i:5156967 original size:70 final size:69
Alignment explanation
Indices: 5156848--5157270 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
5156838 GAGTTAAGCC
*
5156848 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
5156912 TGAGGTA
63 TGAGGTA
* * ** * *
5156919 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
5156984 AGGTA
65 AGGTA
* *
5156989 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
5157054 GAGGTA
64 GAGGTA
* * * ** * * *
5157060 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
5157116 ---A
66 GGTA
*** ** *
5157117 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
5157178 GGTA
66 GGTA
* * *
5157182 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
5157247 TGAGGTA
63 TGAGGTA
*
5157254 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
5157271 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:5157156 original size:122 final size:124
Alignment explanation
Indices: 5156990--5157236 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
5156980 GTTGAGGTAT
5156990 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
5157055 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
5157111 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
5157176 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
5157236 T
1 T
5157237 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:5157201 original size:263 final size:257
Alignment explanation
Indices: 5156681--5157273 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
5156671 TTTCAAGGAA
*
5156681 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
5156746 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
5156811 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
5156876 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
5156938 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
5157003 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
5157068 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
5157133 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
5157198 TTT
255 TTT
* * * * * *
5157201 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
5157266 GTTTTCAA
64 GTTTTCAA
5157274 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:5157232 original size:72 final size:71
Alignment explanation
Indices: 5157111--5157276 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
5157101 GAGTTAAGCC
** * *
5157111 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
5157175 TGAGGTA
65 TGAGGTA
*
5157182 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
5157247 TGAGGTA
65 TGAGGTA
* *
5157254 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
5157277 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:5157607 original size:74 final size:76
Alignment explanation
Indices: 5157501--5157645 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
5157491 TTTTTGCCTT
*
5157501 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
5157563 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
5157575 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
5157640 AATTTC
66 AATTTC
5157646 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:5157613 original size:165 final size:166
Alignment explanation
Indices: 5157341--5157818 Score: 714
Period size: 165 Copynumber: 2.9 Consensus size: 166
5157331 CTACTTTTTC
5157341 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
5157406 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
5157471 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
5157506 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
5157571 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
5157636 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC-----AAAA
*
5157677 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
5157742 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
5157803 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
5157819 CAAAAAATCA
Statistics
Matches: 287, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
165 154 0.54
167 27 0.09
169 34 0.12
171 72 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:5157759 original size:72 final size:73
Alignment explanation
Indices: 5157675--5158181 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
5157665 TTCAAAAAAA
*
5157675 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
5157740 CTGTTTTC
66 CTGTTTTC
* * ** ** *
5157748 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
5157812 CTGTTTTC
66 CTGTTTTC
* * * ** *
5157820 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
5157885 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
5157896 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
5157961 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
5157975 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
5158039 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
5158052 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
5158117 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
5158144 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
5158182 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:5157998 original size:79 final size:76
Alignment explanation
Indices: 5157674--5158391 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
5157664 TTTCAAAAAA
** *
5157674 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
5157737 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
5157748 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
5157809 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
5157820 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
5157884 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
5157896 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
5157961 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
5157975 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
5158039 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
5158052 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
5158117 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
5158144 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
5158208 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
5158231 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
5158292 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
5158306 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
5158371 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
5158392 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:5158052 original size:14 final size:13
Alignment explanation
Indices: 5158033--5158068 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
5158023 TGTCGAGGTA
5158033 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
5158046 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
5158060 TTTTCAAAA
1 TTTTCAAAA
5158069 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:5158199 original size:30 final size:30
Alignment explanation
Indices: 5158163--5158224 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
5158153 CAACTCATAT
5158163 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
5158193 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
5158223 TG
1 TG
5158225 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:5158325 original size:254 final size:248
Alignment explanation
Indices: 5157814--5158392 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
5157804 TTCAATTTCT
* * *
5157814 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
5157879 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
5157940 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
5158005 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
5158059 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
5158123 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
5158188 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
5158250 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
5158313 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
5158377 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
5158393 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:5159055 original size:15 final size:15
Alignment explanation
Indices: 5159037--5159071 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5159027 AACCTAACCC
5159037 AAAAAAAA-AACAAAG
1 AAAAAAAAGAA-AAAG
5159052 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
5159067 AAAAA
1 AAAAA
5159072 CCTACCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:5159086 original size:16 final size:15
Alignment explanation
Indices: 5159067--5159101 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5159057 AAAGAAAAAG
*
5159067 AAAAACCTACCCCAA
1 AAAAACCTAACCCAA
5159082 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
5159097 AAAAA
1 AAAAA
5159102 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:5159102 original size:16 final size:15
Alignment explanation
Indices: 5159067--5159102 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
5159057 AAAGAAAAAG
*
5159067 AAAAACCTACCCCAA
1 AAAAACCTACCCAAA
5159082 AAAAACCTAACCCAAA
1 AAAAACCT-ACCCAAA
5159098 AAAAA
1 AAAAA
5159103 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTACCCAAA
Found at i:5159804 original size:2 final size:2
Alignment explanation
Indices: 5159797--5159828 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5159787 TTTTATGTAC
*
5159797 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5159829 CATTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5161451 original size:20 final size:20
Alignment explanation
Indices: 5161426--5161479 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
5161416 AGGGGCACAT
*
5161426 GCCCGTGTGGCCTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
* *
5161446 GCCCGTGTGTCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
*
5161466 GCCAGTGTGGCCTG
1 GCCCGTGTGGCCTG
5161480 CCCATGGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:5163209 original size:23 final size:23
Alignment explanation
Indices: 5163155--5163215 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
5163145 GAAACATAAA
5163155 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
5163176 GTGCCTG--ATACAACACACGAG
1 GTGCCTGAAATACGACACACGAG
5163197 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
5163216 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.71
23 9 0.26
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:5163223 original size:23 final size:23
Alignment explanation
Indices: 5163141--5163227 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
5163131 CCTGATCAGT
* *
5163141 ATACGAAACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
5163163 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
5163183 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
5163206 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
5163228 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.62
22 1 0.02
23 18 0.35
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:5164161 original size:31 final size:32
Alignment explanation
Indices: 5164103--5164166 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
5164093 CATACATTTG
*
5164103 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
5164135 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
5164166 T
1 T
5164167 TTTACTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:5164720 original size:13 final size:14
Alignment explanation
Indices: 5164702--5164730 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5164692 GATTAACTTC
5164702 ATAAATATTTT-TA
1 ATAAATATTTTCTA
5164715 ATAAATATTTTCTA
1 ATAAATATTTTCTA
5164729 AT
1 AT
5164731 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:5165051 original size:13 final size:13
Alignment explanation
Indices: 5165033--5165063 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5165023 AGATAATTAG
5165033 CAAATCATACATA
1 CAAATCATACATA
5165046 CAAATCATACATA
1 CAAATCATACATA
*
5165059 TAAAT
1 CAAAT
5165064 TTATACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:5165463 original size:40 final size:37
Alignment explanation
Indices: 5165393--5165486 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 37
5165383 ACCAGAATGG
*
5165393 CGACCAACGCCTCATCGGATAGTTCAAAGCAAATAAGTGA
1 CGACCAACGCCTCATCGGATAGTCCAAAGC--A-AAGTGA
* * * *
5165433 CGACCAACGTCTCATCGGCTAAG-CCGAAGCAAAGTGG
1 CGACCAACGCCTCATCGGAT-AGTCCAAAGCAAAGTGA
5165470 CGACCAACGCCTCATCG
1 CGACCAACGCCTCATCG
5165487 AATCTATCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
37 21 0.45
38 1 0.02
40 23 0.49
41 2 0.04
ACGTcount: A:0.32, C:0.31, G:0.22, T:0.15
Consensus pattern (37 bp):
CGACCAACGCCTCATCGGATAGTCCAAAGCAAAGTGA
Found at i:5166488 original size:16 final size:16
Alignment explanation
Indices: 5166469--5166499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5166459 TTTCTTTTGT
*
5166469 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
5166485 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
5166500 TATTTACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:5166637 original size:3 final size:3
Alignment explanation
Indices: 5166623--5166662 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
5166613 CAATCTCAAT
5166623 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5166663 GTAAATATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5171320 original size:72 final size:72
Alignment explanation
Indices: 5171244--5171381 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 72
5171234 AATTTTATAA
* * * *
5171244 TGTAATTAGAACAGTTTGAAATTTGAAAACCAATTTAAAATTAAGATCATAATTTGGGATGCCTG
1 TGTAATTAAAACAATTTAAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGATGCCTG
5171309 ATGTAAT
66 ATGTAAT
* ** * * *
5171316 TGTAATTAAAACAATTTAAAATTTGAGAGTAAATTTAAAATTAAGATTATAGTTTGGGATGTCTG
1 TGTAATTAAAACAATTTAAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGATGCCTG
5171381 A
66 A
5171382 AGCAATTAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (72 bp):
TGTAATTAAAACAATTTAAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGATGCCTG
ATGTAAT
Found at i:5173425 original size:12 final size:12
Alignment explanation
Indices: 5173391--5173417 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5173381 ATTGCACGAT
5173391 GAAAAGAAAAAA
1 GAAAAGAAAAAA
5173403 GAAAAGAAAAAA
1 GAAAAGAAAAAA
5173415 GAA
1 GAA
5173418 GGGAAAAATT
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:5173581 original size:31 final size:31
Alignment explanation
Indices: 5173543--5173676 Score: 118
Period size: 31 Copynumber: 4.4 Consensus size: 31
5173533 TTTTGTCCAC
*
5173543 TTTGGTACCTAAACTTAACACTTTTTCCTAA
1 TTTGGTACCTAAACTTGACACTTTTTCCTAA
* * *
5173574 TTTGGTACCTAAATTTGACACTTTTTCTTAC
1 TTTGGTACCTAAACTTGACACTTTTTCCTAA
* *
5173605 GTTGGTA-CTAAATCTT----TTTTGGGTTCC-AA
1 TTTGGTACCTAAA-CTTGACACTTT---TTCCTAA
* *
5173634 TTTGGTACTTAAACTTGACTCTTTTTCCTAA
1 TTTGGTACCTAAACTTGACACTTTTTCCTAA
5173665 TTTGGTACCTAA
1 TTTGGTACCTAA
5173677 TATTTTTTTG
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
27 3 0.04
29 10 0.12
30 16 0.20
31 48 0.60
33 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTGGTACCTAAACTTGACACTTTTTCCTAA
Found at i:5173652 original size:60 final size:59
Alignment explanation
Indices: 5173567--5173708 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 59
5173557 TTAACACTTT
* * * *
5173567 TTCCTAATTTGGTACCTAAATTTGACACTTTTTCTTACGTTGGTA-CTAA-ATCTTTTTTGGG
1 TTCC-AATTTGGTACTTAAACTTGACACTTTTTCCTAAGTTGGTACCTAATAT-TTTTTT--G
* *
5173628 TTCCAATTTGGTACTTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATATTTTTTTG
1 TTCCAATTTGGTACTTAAACTTGACACTTTTTCCTAAGTTGGTACCTAATATTTTTTTG
* *
5173687 TT-CGATTTGGTACTTGAACTTG
1 TTCCAATTTGGTACTTAAACTTG
5173709 TCAAACGTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
58 18 0.25
59 3 0.04
60 34 0.48
61 14 0.20
62 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (59 bp):
TTCCAATTTGGTACTTAAACTTGACACTTTTTCCTAAGTTGGTACCTAATATTTTTTTG
Found at i:5173667 original size:91 final size:89
Alignment explanation
Indices: 5173484--5173681 Score: 247
Period size: 91 Copynumber: 2.2 Consensus size: 89
5173474 TTAATAGAAC
* * * * *
5173484 ATTTGGCACTTAAATTTAACATATTTTCTTAATTTGGTACCTAAATTTTTTTTGTCCACTTTGGT
1 ATTTGGTACCTAAATTTAACATATTTTCTTAAGTTGGTACCTAAATTTTTTTGGTCCAATTTGGT
5173549 ACCTAAACTTAACACTTTTTCCTA
66 ACCTAAACTTAACACTTTTTCCTA
* *
5173573 ATTTGGTACCTAAATTTGACACT-TTTTCTTACGTTGGTA-CTAAATCTTTTTTGGGTTCCAATT
1 ATTTGGTACCTAAATTTAACA-TATTTTCTTAAGTTGGTACCTAAAT-TTTTTT-GG-TCCAATT
* * *
5173636 TGGTACTTAAACTTGACTCTTTTTCCTA
62 TGGTACCTAAACTTAACACTTTTTCCTA
5173664 ATTTGGTACCTAATATTT
1 ATTTGGTACCTAA-ATTT
5173682 TTTTGTTCGA
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
88 6 0.06
89 38 0.40
90 2 0.02
91 44 0.47
92 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (89 bp):
ATTTGGTACCTAAATTTAACATATTTTCTTAAGTTGGTACCTAAATTTTTTTGGTCCAATTTGGT
ACCTAAACTTAACACTTTTTCCTA
Found at i:5174156 original size:60 final size:60
Alignment explanation
Indices: 5174080--5174238 Score: 178
Period size: 59 Copynumber: 2.7 Consensus size: 60
5174070 AACTCTTTGG
** * * * * *
5174080 TACCAAATTAGGAAAAAAATGTCAAGTTCAGGTACTAAATTGGGCCCAAAAAAGTTTA-A
1 TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACCAAATTAGGACAAAAAAAATTTAGA
* *
5174139 GTATCAAATTAGG-AAAAAGTGTCAAGTTCAAATACCAAATTAGGACAAAAAAAATTTAGA
1 -TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACCAAATTAGGACAAAAAAAATTTAGA
* * * *
5174199 TACCAAATTAGAAAAAAAATGCCAAATTCATATACCAAAT
1 TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACCAAAT
5174239 ATTATATCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 47 0.57
60 35 0.43
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (60 bp):
TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACCAAATTAGGACAAAAAAAATTTAGA
Found at i:5186841 original size:30 final size:29
Alignment explanation
Indices: 5186807--5186864 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
5186797 AACCAGTGGC
5186807 TTTTGGAGGTCT-AATGAAAATTTCAAAAAT
1 TTTTGGA-GTCTAAATGAAAATTT-AAAAAT
*
5186837 TTTTGGAGTTTAAATGAAAATTTAAAAA
1 TTTTGGAGTCTAAATGAAAATTTAAAAA
5186865 GAAAAAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTTGGAGTCTAAATGAAAATTTAAAAAT
Found at i:5191327 original size:174 final size:173
Alignment explanation
Indices: 5190844--5191329 Score: 645
Period size: 174 Copynumber: 2.8 Consensus size: 173
5190834 CCGCAAAGTG
* * * * * * *
5190844 GAGGTAAATATATAGTTACTTAATGTCATTAAACATGTACCACACTATGCTAAGTTTTGGAAGGA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
* * * * * *
5190909 ATTATGCAATAGCAAAAAGAAGCTAGCCAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTTTGC
66 ATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTCTGC
5190974 TATCATAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
131 TATCATAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
* *
5191017 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTGTGCAAAGTTTTGGAAAAA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTT-GAAAAG
* * * * *
5191082 AATTGTGCACTAACAAAAACAAGCTAGTTGGGTTAAAAAGGTAAGTATGAGAGAAAATGTTTCTG
65 AATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTCTG
*
5191147 CTATCATCAAAAAAAAAGATACCCCTAAAACTTTCCA-TAAAATA
130 CTATCATAAAAAAAAAAGATACCCCTAAAAC-TTCCAGTAAAATA
5191191 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTAT-C-AAGTTTTGAAAAGA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
* * * ** *
5191254 ATTGTACACTAACAAAAAAAAAAAACTAACTAATTTGAAAAGGGAAGTATGAGAGAAAATGTCTC
66 ATTGTGCACTAAC---AAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTC
**
5191319 CACTATCATAA
128 TGCTATCATAA
5191330 GAAGATATCC
Statistics
Matches: 272, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
171 18 0.07
172 7 0.03
173 53 0.19
174 189 0.69
175 5 0.02
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (173 bp):
GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
ATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTCTGC
TATCATAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
Found at i:5191682 original size:30 final size:29
Alignment explanation
Indices: 5191625--5191682 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
5191615 TATATACCTT
*
5191625 TATACATGAACTTTGATTTTGTGCAATTG
1 TATACATGAACTTTGATTTTGTCCAATTG
*
5191654 TATACATGAAGTTTTGA-TTTGATCCAATT
1 TATACATGAA-CTTTGATTTTG-TCCAATT
5191683 CTCTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTG
Found at i:5196844 original size:6 final size:6
Alignment explanation
Indices: 5196833--5196864 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
5196823 CAAATAATAA
5196833 AATTTT AATTTT AATTTT AATTTT AATGTTT A
1 AATTTT AATTTT AATTTT AATTTT AAT-TTT A
5196865 TGCTTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:5198820 original size:114 final size:114
Alignment explanation
Indices: 5198379--5198821 Score: 673
Period size: 114 Copynumber: 3.9 Consensus size: 114
5198369 TTTTATAGTT
* *
5198379 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATAT-AATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
5198444 TAATATATTTT-AAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
65 TAATATATTTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * * * *
5198493 GATTAGG-TATATAAATTGTTAGTGTTTAGCGGTTTAGTATATTAGCGTATTATAATTTTTTTAG
1 GATTAGGTTATAT-AATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
5198557 TAATATATTTTAAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
65 TAATATATTTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
5198607 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATAT-AATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
5198672 TAATATA-TTTAAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
65 TAATATATTTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
*
5198721 GATTAGGTTATAT-ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTTT
1 GATTAGGTTATATAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGA-TTTTTTT
* * *
5198785 AGTAGTGTA-TTT-AAAAAAATAATTTTATAGTTATTTT
63 AGTAATATATTTTAAAAAAAATAATTTTATAGCTATTTT
5198822 GTGTTAGTAT
Statistics
Matches: 306, Mismatches: 18, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
112 22 0.07
113 62 0.20
114 146 0.48
115 76 0.25
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (114 bp):
GATTAGGTTATATAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGT
AATATATTTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:5198937 original size:22 final size:22
Alignment explanation
Indices: 5198884--5198946 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
5198874 TTTTTTAATG
*
5198884 TAATTTTTATATAATGTAATTTA
1 TAATTTTTATATAAT-TTATTTA
*
5198907 T-ATTATTATAT-ATTTATTTGA
1 TAATTTTTATATAATTTATTT-A
5198928 TAATTTTTAT-TAATTTATT
1 TAATTTTTATATAATTTATT
5198947 AAAATGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 23 0.68
23 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TAATTTTTATATAATTTATTTA
Found at i:5200996 original size:33 final size:33
Alignment explanation
Indices: 5200959--5201070 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
5200949 ATTTATCTCA
*
5200959 GTACTCTACTCCTTCCGGCCCATATCCACC-CAT
1 GTACTCTACTCCTTCCGGCCCATATCCACCGC-C
* * *
5200992 GTACTCAACT-CATCCAGAG-CCGTATCCACCGCC
1 GTACTCTACTCCTTCC-G-GCCCATATCCACCGCC
* *
5201025 GTACTCTACTCCTCCCGGCCCATATCCACCTCC
1 GTACTCTACTCCTTCCGGCCCATATCCACCGCC
* *
5201058 ATATTCTACTCCT
1 GTACTCTACTCCT
5201071 CTTGGCTCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
32 5 0.08
33 53 0.84
34 5 0.08
ACGTcount: A:0.20, C:0.45, G:0.10, T:0.26
Consensus pattern (33 bp):
GTACTCTACTCCTTCCGGCCCATATCCACCGCC
Found at i:5217991 original size:14 final size:15
Alignment explanation
Indices: 5217972--5218004 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5217962 ATTGAGATGA
*
5217972 TGATACTTAT-TTGT
1 TGATACTAATATTGT
5217986 TGATACTAATATTGT
1 TGATACTAATATTGT
5218001 TGAT
1 TGAT
5218005 GCTGTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
TGATACTAATATTGT
Found at i:5223271 original size:16 final size:15
Alignment explanation
Indices: 5223242--5223270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5223232 CCGAAGTTAA
5223242 TTTTAAAATATATAT
1 TTTTAAAATATATAT
5223257 TTTTAAAA-ATATAT
1 TTTTAAAATATATAT
5223271 AAAGAGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:5223684 original size:7 final size:6
Alignment explanation
Indices: 5223667--5223697 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
5223657 CTATAGCTTT
5223667 CAAAAA CAAAAA CAAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA C-AAAAA CAAAAA CAAAAA
5223698 GAAAGATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:5223686 original size:13 final size:13
Alignment explanation
Indices: 5223668--5223697 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5223658 TATAGCTTTC
5223668 AAAAACAAAAACA
1 AAAAACAAAAACA
5223681 AAAAACAAAAACA
1 AAAAACAAAAACA
5223694 AAAA
1 AAAA
5223698 GAAAGATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAACA
Found at i:5226485 original size:20 final size:22
Alignment explanation
Indices: 5226448--5226488 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5226438 TATAATATAT
*
5226448 TATATTATGTTATTTTTATAAA
1 TATATTATGTTATATTTATAAA
5226470 TATATTATG-TA-ATTTATAA
1 TATATTATGTTATATTTATAA
5226489 CACATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATTATGTTATATTTATAAA
Found at i:5227646 original size:5 final size:5
Alignment explanation
Indices: 5227625--5227677 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
5227615 TGTTAAAATA
* *
5227625 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
5227673 TATAT
1 TATAT
5227678 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:5227656 original size:10 final size:9
Alignment explanation
Indices: 5227622--5227678 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
5227612 ATGTGTTAAA
5227622 ATATATATT
1 ATATATATT
*
5227631 AAAT-TATT
1 ATATATATT
5227639 AT-TATATT
1 ATATATATT
5227647 ATAGTATATT
1 ATA-TATATT
5227657 ATAT-TA-T
1 ATATATATT
5227664 ATATTATATT
1 ATA-TATATT
5227674 ATATA
1 ATATA
5227679 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:5227668 original size:12 final size:12
Alignment explanation
Indices: 5227623--5227678 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
5227613 TGTGTTAAAA
*
5227623 TATATATTAAAT
1 TATATATTATAT
5227635 TAT-TATTATATT
1 TATATATTATA-T
5227647 ATAGTATATTATAT
1 -TA-TATATTATAT
5227661 TATATATTATAT
1 TATATATTATAT
5227673 TATATA
1 TATATA
5227679 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:5228991 original size:19 final size:15
Alignment explanation
Indices: 5228945--5228986 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
5228935 CGATGAATTT
*
5228945 ATTGAATTTATATTG
1 ATTGAAATTATATTG
5228960 ATTGAAATTATATTG
1 ATTGAAATTATATTG
5228975 ATTG-AATTATAT
1 ATTGAAATTATAT
5228987 AATATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:5229389 original size:23 final size:21
Alignment explanation
Indices: 5229358--5229466 Score: 103
Period size: 21 Copynumber: 5.1 Consensus size: 21
5229348 GGCTTTATCG
*
5229358 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
**
5229379 ACTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
5229402 ATCAGGCACC-TAGTGTGTCGT
1 ATCAGGCACCTTA-TGTGTCGT
* **
5229423 ATAAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* * *
5229444 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
5229465 AT
1 AT
5229467 ACTGATCAGG
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
21 52 0.74
23 18 0.26
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:5229406 original size:21 final size:21
Alignment explanation
Indices: 5229371--5229466 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
5229361 AGGCACTTTA
5229371 TGTGTCGTACTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
5229394 TGTGTCGTATCAGGCACCTAG
1 TGTGTCGTATCAGGCACCTCG
*
5229415 TGTGTCGTATAAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
5229436 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
5229457 TGTGTCGTAT
1 TGTGTCGTAT
5229467 ACTGATCAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 55 0.86
23 9 0.14
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:5229443 original size:42 final size:42
Alignment explanation
Indices: 5229358--5229467 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
5229348 GGCTTTATCG
*
5229358 ATCAGGCACTTTATGTGTCGTACTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TAAGGCACCTCGTGTGTCGT
*
5229402 ATCAGGCAC-CTAGTGTGTCGTATAAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTA-TGTGTCGTATAAGGCACCTCGTGTGTCGT
* *
5229444 TTTAGGCACTTTATGTGTCGTATA
1 ATCAGGCACTTTATGTGTCGTATA
5229468 CTGATCAGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 37 0.63
43 4 0.07
44 18 0.31
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATAAGGCACCTCGTGTGTCGT
Found at i:5231760 original size:27 final size:27
Alignment explanation
Indices: 5231719--5231781 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
5231709 ATACATACAT
*
5231719 GTTGTGCCTACCTGACAGGCTCAACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
* * *
5231746 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
5231773 GTTGTGCCT
1 GTTGTGCCT
5231782 TCTTGGTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACAACTA
Found at i:5235442 original size:33 final size:32
Alignment explanation
Indices: 5235405--5235496 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 32
5235395 ATATGGAGAT
* *
5235405 GGATATGGGCCGGGAGGAGTAGAGTACGGCGGA
1 GGATA-GGGCCGGGAGGAGTAGAGTACAGAGGA
* * * * *
5235438 GGATACGGCTCTGGAGGAGTTGAGTACATAGGT
1 GGATAGGGC-CGGGAGGAGTAGAGTACAGAGGA
*
5235471 GGATACGGGCCGGAAGGAGTAGAGTA
1 GGATA-GGGCCGGGAGGAGTAGAGTA
5235497 TTGAGATAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
32 3 0.07
33 40 0.87
34 3 0.07
ACGTcount: A:0.26, C:0.12, G:0.46, T:0.16
Consensus pattern (32 bp):
GGATAGGGCCGGGAGGAGTAGAGTACAGAGGA
Found at i:5237558 original size:15 final size:16
Alignment explanation
Indices: 5237538--5237569 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5237528 ATATATAATA
5237538 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
5237553 ATATAAAAATTACATT
1 ATATAAAAATTACATT
5237569 A
1 A
5237570 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:5237823 original size:114 final size:115
Alignment explanation
Indices: 5237627--5237891 Score: 428
Period size: 116 Copynumber: 2.3 Consensus size: 115
5237617 GTACTAACAC
* * * * * *
5237627 AAAATAACTATAAAATTAGTTTTTT-AAATACATTACTTAAAAAAATCACAATACATTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATA-AC
5237691 ACTAAACCACTAAACACTAACAA-TATATAACCTAATCTTAAATTACTAAT
65 ACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
5237741 AAAATAGCTATAAAAATATTTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAAT-AC
1 AAAATAGCTATAAAAATA-TTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATAAC
5237805 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 ACTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
5237857 AAAATAGCTATAAAAATATTTTTTTAAAATATATT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATT
5237892 GTAAGACCTA
Statistics
Matches: 141, Mismatches: 6, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
114 41 0.29
115 23 0.16
116 77 0.55
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATAACA
CTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
Found at i:5238007 original size:15 final size:17
Alignment explanation
Indices: 5237987--5238029 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
5237977 AATACAACCG
5237987 AAAATAAAAAAT-AA-A
1 AAAATAAAAAATGAAGA
5238002 AAAATAAAAAATGAAGA
1 AAAATAAAAAATGAAGA
*
5238019 AAAAGAAAAAA
1 AAAATAAAAAA
5238030 AGAAAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAATGAAGA
Found at i:5238028 original size:7 final size:8
Alignment explanation
Indices: 5237992--5238035 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
5237982 AACCGAAAAT
*
5237992 AAAAAATA
1 AAAAAAGA
*
5238000 AAAAAATA
1 AAAAAAGA
*
5238008 AAAAATGA
1 AAAAAAGA
5238016 AGAAAAAGA
1 A-AAAAAGA
5238025 AAAAAAGA
1 AAAAAAGA
5238033 AAA
1 AAA
5238036 GATAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (8 bp):
AAAAAAGA
Found at i:5238861 original size:2 final size:2
Alignment explanation
Indices: 5238854--5238880 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5238844 TGTTTATGTA
5238854 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5238881 ATTTTGCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5239177 original size:19 final size:19
Alignment explanation
Indices: 5239150--5239187 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5239140 TTGAGATTGC
* *
5239150 CAACTTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
5239169 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
5239188 TATTCATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:5251384 original size:44 final size:44
Alignment explanation
Indices: 5251321--5252375 Score: 1508
Period size: 44 Copynumber: 24.3 Consensus size: 44
5251311 GATATCCAAG
* *
5251321 ACAGATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5251365 ACAGATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5251409 ACAGATTTGGCATATCTGTAGCGGCGGAAAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5251453 ACAGATTTGGCGTCTTTATAGCGGCGGAGAGCATATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
5251497 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
5251541 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5251585 ACAAATTTGGCGTCTCTGTAGCGGCGG-GAGCAGATTGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
5251628 AGAGATTTGGCGTCTCTGTAGCGGCTGAGAGCAAATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
5251672 ACAGATTTGGC-TCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5251714 ---GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5251755 ACAGATTTGGGGTCTCTGTAGCGGCGGTGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5251799 ACAGATTTGGCGTCTCTATAGCGGCGGAGAGTAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
** * * **
5251843 GGAGATTTGGCATCTCTATAGCGGTAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
5251887 ACAGATTTGACATCTCTGTAGCGGTGGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
5251931 ACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5251975 ACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5252018 ---GATTTGGCATCTTTGTAGCGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5252059 ATAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5252103 ACAGATTTGGTGTCTCTGTAGCGGCGGAGAGCATATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
5252147 ACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
5252190 ---GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5252231 ACAGATTTGGCGTCTCCGTAGCGGCAGAGAGCAAATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5252275 ACATATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
5252319 ATAGATTTGGTGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
5252363 ATAGATTTGGCGT
1 ACAGATTTGGCGT
5252376 ATAATAGATT
Statistics
Matches: 909, Mismatches: 88, Indels: 28
0.89 0.09 0.03
Matches are distributed among these distances:
39 8 0.01
40 103 0.11
43 67 0.07
44 731 0.80
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (44 bp):
ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
Found at i:5252381 original size:16 final size:16
Alignment explanation
Indices: 5252360--5252391 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5252350 CAGATCGAAG
5252360 ATAATAGATTTGGCGT
1 ATAATAGATTTGGCGT
5252376 ATAATAGATTTGGCGT
1 ATAATAGATTTGGCGT
5252392 CTCTGTAGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
ATAATAGATTTGGCGT
Found at i:5252383 original size:60 final size:60
Alignment explanation
Indices: 5252316--5252435 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
5252306 CAGATCGAAG
* * * *
5252316 ATAATAGATTTGGTGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGT
1 ATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGT
5252376 ATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGT
1 ATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGT
5252436 CTCTGTAACG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (60 bp):
ATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGT
Found at i:5252431 original size:44 final size:44
Alignment explanation
Indices: 5252376--5252510 Score: 173
Period size: 44 Copynumber: 3.0 Consensus size: 44
5252366 GATTTGGCGT
*
5252376 ATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
1 ATAATAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCAAAG
* * *
5252420 ATAACAGATTTGGCGTCTCTGTAACGGCGGAGAGTAGATCGAAG
1 ATAATAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCAAAG
* * * *
5252464 ATAATGGATTTGGCGTCTTTGTATTA-GACGGGGAGCAGATCAAAG
1 ATAATAGATTTGGCGTCTCTGTA--ACGGCGGAGAGCAGATCAAAG
5252509 AT
1 AT
5252511 GGCAGATATC
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
44 60 0.77
45 17 0.22
46 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (44 bp):
ATAATAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCAAAG
Found at i:5252459 original size:104 final size:104
Alignment explanation
Indices: 5252279--5252479 Score: 321
Period size: 104 Copynumber: 1.9 Consensus size: 104
5252269 AAGATAACAT
* * * **
5252279 ATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCGAAGATAATAGATTTGGTGTCTCTGTAGTGGC
1 ATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAACGGC
5252344 GGAGAGCAGATCGAAGATAATAGATTTGGCGTATAATAG
66 GGAGAGCAGATCGAAGATAATAGATTTGGCGTATAATAG
* *
5252383 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAACGGC
1 ATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAACGGC
* *
5252448 GGAGAGTAGATCGAAGATAATGGATTTGGCGT
66 GGAGAGCAGATCGAAGATAATAGATTTGGCGT
5252480 CTTTGTATTA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 88 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (104 bp):
ATTTGGCGTCTCCGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAACGGC
GGAGAGCAGATCGAAGATAATAGATTTGGCGTATAATAG
Found at i:5252800 original size:9 final size:8
Alignment explanation
Indices: 5252776--5252820 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
5252766 AATACAACCC
5252776 AAAAT-AA
1 AAAATAAA
5252783 AAAATAAA
1 AAAATAAA
5252791 AAAATAAA
1 AAAATAAA
5252799 AAAATGAAGA
1 AAAAT-AA-A
*
5252809 AAAAGAAA
1 AAAATAAA
5252817 AAAA
1 AAAA
5252821 CCTAACCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:5257204 original size:2 final size:2
Alignment explanation
Indices: 5257199--5257230 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5257189 CCCCCCTCCA
5257199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5257231 AAATAGAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5257362 original size:30 final size:30
Alignment explanation
Indices: 5257328--5257417 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
5257318 GAGACTCACT
5257328 ATTAACTTAATTTAATTACATTATATAATA
1 ATTAACTTAATTTAATTACATTATATAATA
*
5257358 ATTAATTTAATTTAATTATCA-TAT-TATATA
1 ATTAACTTAATTTAATTA-CATTATATA-ATA
* * *
5257388 CTTCAC-T-A-TTAATCACATTATATAATA
1 ATTAACTTAATTTAATTACATTATATAATA
5257415 ATT
1 ATT
5257418 TAATTTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.04
27 14 0.28
28 3 0.06
29 3 0.06
30 26 0.52
31 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAACTTAATTTAATTACATTATATAATA
Found at i:5267768 original size:12 final size:12
Alignment explanation
Indices: 5267736--5267803 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
5267726 GAAGTCTAAG
*
5267736 AAAATAACAAAAA
1 AAAATAA-AAATA
5267749 AAACATAAAAATA
1 AAA-ATAAAAATA
* **
5267762 GAAATAAATTTA
1 AAAATAAAAATA
*
5267774 AAAATAGAAATA
1 AAAATAAAAATA
5267786 AAAAT-AAAAT-
1 AAAATAAAAATA
5267796 AAAATAAA
1 AAAATAAA
5267804 TAGACTCAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 5 0.11
11 6 0.14
12 20 0.45
13 9 0.20
14 4 0.09
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:5267777 original size:18 final size:18
Alignment explanation
Indices: 5267753--5267805 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
5267743 CAAAAAAAAC
5267753 ATAAAAATAGAAATAAAT
1 ATAAAAATAGAAATAAAT
* *
5267771 TTAAAAATAGAAATAAAA
1 ATAAAAATAGAAATAAAT
5267789 AT-AAAATA-AAATAAAT
1 ATAAAAATAGAAATAAAT
5267805 A
1 A
5267806 GACTCAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 8 0.26
17 6 0.19
18 17 0.55
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
ATAAAAATAGAAATAAAT
Found at i:5274651 original size:32 final size:32
Alignment explanation
Indices: 5274610--5274672 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
5274600 TGACTCTCCG
5274610 TTAGCCTACCATGAAGCACACTATCCAACCAT
1 TTAGCCTACCATGAAGCACACTATCCAACCAT
5274642 TTAGCCTACCATGAAGCACACTATCCAACCA
1 TTAGCCTACCATGAAGCACACTATCCAACCA
5274673 ATCACATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.21
Consensus pattern (32 bp):
TTAGCCTACCATGAAGCACACTATCCAACCAT
Found at i:5279007 original size:47 final size:46
Alignment explanation
Indices: 5278886--5279018 Score: 185
Period size: 46 Copynumber: 2.9 Consensus size: 46
5278876 ATAATCTCAC
* * *
5278886 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
* *
5278932 CCATAATGAACTCGGAACACAACTCAACGAGTTCGAATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
* * *
5278978 CCATAGGTGAACTTGGAATGCAACTCAACGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
5279019 CTCATAATTC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
46 46 0.61
47 30 0.39
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
Found at i:5286803 original size:20 final size:20
Alignment explanation
Indices: 5286770--5286808 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5286760 TGTATCGCCA
* *
5286770 ATTATATTTTTTATGATTAC
1 ATTATATATATTATGATTAC
*
5286790 ATTATATATATTATTATTA
1 ATTATATATATTATGATTA
5286809 TTATTAAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTATATATATTATGATTAC
Found at i:5286822 original size:26 final size:24
Alignment explanation
Indices: 5286772--5286822 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
5286762 TATCGCCAAT
* *
5286772 TATATTTTTTATGATTACATTATA
1 TATATTTTTTATGATTAAATCATA
*
5286796 TATATTATTATTATTATTAAATCATA
1 TATATT-TT-TTATGATTAAATCATA
5286822 T
1 T
5286823 TTTTAACCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
TATATTTTTTATGATTAAATCATA
Found at i:5291945 original size:24 final size:24
Alignment explanation
Indices: 5291890--5291946 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
5291880 CAAAAGCAGT
*
5291890 CACAGTTAGCTAGCCCAAAATAGC
1 CACAGTTGGCTAGCCCAAAATAGC
*
5291914 CACAGTTGGCTAGCCCAAAGTAGC
1 CACAGTTGGCTAGCCCAAAATAGC
5291938 CACAGTTGG
1 CACAGTTGG
5291947 GCAACAAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (24 bp):
CACAGTTGGCTAGCCCAAAATAGC
Found at i:5298887 original size:119 final size:119
Alignment explanation
Indices: 5298704--5299029 Score: 535
Period size: 119 Copynumber: 2.7 Consensus size: 119
5298694 ACATTTATGT
**
5298704 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAATAAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
*
5298769 TTTGACTCTCAGACGTTCTCAAAGATAGCAGACCTAACCTTCAGATGTTTATAC
66 TTTGACTCTCAGACGTTCTCAAAGATAACAGACCTAACCTTCAGATGTTTATAC
*
5298823 TGAAGCAGATCCAAGATGATTTAGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
* * *
5298888 TTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATGC
66 TTTGACTCTCAGACGTTCTCAAAGATAACAGACCTAACCTTCAGATGTTTATAC
* * *
5298942 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATTGAGGACATTGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
* * *
5299007 TATGACTCTCAAATGTTCTCAAA
66 TTTGACTCTCAGACGTTCTCAAA
5299030 CAGACTCAAG
Statistics
Matches: 193, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 193 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
TTTGACTCTCAGACGTTCTCAAAGATAACAGACCTAACCTTCAGATGTTTATAC
Found at i:5299092 original size:83 final size:83
Alignment explanation
Indices: 5298953--5299220 Score: 421
Period size: 83 Copynumber: 3.2 Consensus size: 83
5298943 GAAGCAGATC
* * * * *
5298953 CAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATTGAGGACATTGTAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
5299018 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
5299036 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGATATTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
5299101 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
5299119 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTAGCAGATATGACTCTCG
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
5299184 AATGTTCTCAAAACAGACT
66 AATGTTCTC-AAACAGACT
*
5299203 CAA-ACTGATTTGGTATCC
1 CAAGA-TGATTTGGCATCC
5299221 CCACAAATCG
Statistics
Matches: 172, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
83 148 0.86
84 24 0.14
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:5300881 original size:2 final size:2
Alignment explanation
Indices: 5300876--5300902 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5300866 ATTTATTAAT
5300876 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 T
5300903 TGTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5301046 original size:20 final size:20
Alignment explanation
Indices: 5301013--5301051 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5301003 TGTATCGCCA
* *
5301013 ATTATATTTTTTATGATTAC
1 ATTATATATATTATGATTAC
*
5301033 ATTATATATATTATTATTA
1 ATTATATATATTATGATTA
5301052 TTAAATCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTATATATATTATGATTAC
Found at i:5302813 original size:11 final size:11
Alignment explanation
Indices: 5302797--5302839 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
5302787 CCATTTTAAA
5302797 ATTTAAAAATT
1 ATTTAAAAATT
*
5302808 ATTTAAAAATC
1 ATTTAAAAATT
**
5302819 ATAAAAAAATTT
1 ATTTAAAAA-TT
5302831 ATTTAAAAA
1 ATTTAAAAA
5302840 ATTTATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTTAAAAATT
Found at i:5302857 original size:17 final size:16
Alignment explanation
Indices: 5302831--5302864 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5302821 AAAAAAATTT
5302831 ATTTAAAAAATTTATAA
1 ATTTAAAAAA-TTATAA
*
5302848 ATTTATAAAATTATAA
1 ATTTAAAAAATTATAA
5302864 A
1 A
5302865 AATTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAAAAAATTATAA
Found at i:5303000 original size:12 final size:12
Alignment explanation
Indices: 5302985--5303033 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
5302975 AAAATTTAAA
5302985 TTTTTATAA-TT
1 TTTTTATAATTT
5302996 TTTTTATGAATTT
1 TTTTTAT-AATTT
*
5303009 TTTTAAT-ATTT
1 TTTTTATAATTT
*
5303020 TGTTTATAATTT
1 TTTTTATAATTT
5303032 TT
1 TT
5303034 AATAACTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 16 0.52
12 7 0.23
13 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:5303001 original size:11 final size:11
Alignment explanation
Indices: 5302985--5303033 Score: 64
Period size: 12 Copynumber: 4.3 Consensus size: 11
5302975 AAAATTTAAA
5302985 TTTTTATAATT
1 TTTTTATAATT
5302996 TTTTTATGAATT
1 TTTTTAT-AATT
5303008 TTTTTA-ATATT
1 TTTTTATA-ATT
5303019 TTGTTTATAATT
1 TT-TTTATAATT
5303031 TTT
1 TTT
5303034 AATAACTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 13 0.38
12 19 0.56
13 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:5303007 original size:21 final size:20
Alignment explanation
Indices: 5302979--5303034 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 20
5302969 TAATAAAAAA
5302979 TTTA-AATTTTTATAATTTT
1 TTTATAATTTTTATAATTTT
*
5302998 TTTATGAATTTTTTTAATATTTT
1 TTTAT-AATTTTTAT-A-ATTTT
5303021 GTTTATAATTTTTA
1 -TTTATAATTTTTA
5303035 ATAACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.13
21 8 0.27
22 1 0.03
23 12 0.40
24 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTATAATTTTTATAATTTT
Found at i:5303019 original size:23 final size:23
Alignment explanation
Indices: 5302985--5303033 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
5302975 AAAATTTAAA
5302985 TTTTTATAATTTT-TTTATGAATT
1 TTTTTATAATTTTGTTTAT-AATT
5303008 TTTTTA-ATATTTTGTTTATAATT
1 TTTTTATA-ATTTTGTTTATAATT
5303031 TTT
1 TTT
5303034 AATAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTATAATTTTGTTTATAATT
Found at i:5304878 original size:11 final size:11
Alignment explanation
Indices: 5304848--5304886 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
5304838 AAGACATATA
5304848 AATAAAATACAT
1 AATAAAATA-AT
5304860 AA-ATAAATAAT
1 AATA-AAATAAT
5304871 AATAAAATAAT
1 AATAAAATAAT
5304882 AATAA
1 AATAA
5304887 TAACAACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Done.