Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 188 of 199
Found at i:59725237 original size:22 final size:22
Alignment explanation
Indices: 59725212--59725257 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59725202 ATAAATTTAT
59725212 TAAATATTAAAATAAAATAA-AA
1 TAAATATTAAAA-AAAATAATAA
*
59725234 TAAATATTTAAAAAAATAATAA
1 TAAATATTAAAAAAAATAATAA
59725256 TA
1 TA
59725258 TAGGTGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATATTAAAAAAAATAATAA
Found at i:59727481 original size:88 final size:87
Alignment explanation
Indices: 59727359--59727527 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 87
59727349 GTTCCCATTT
* * * *
59727359 TTATATAAGCAAAATTATAGCTACCCATTATTATTGGGGTCTAATTTGATAAATAGCAGTTCATG
1 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTT-ATG
59727424 T-TTTTTCAGAAAAAAAACTGTAC
65 TCTTTTTC-GAAAAAAAACTGTAC
* *
59727447 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCCGTTATTT
1 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTTATGT
59727512 CTTTTTCGAAAAAAAA
66 CTTTTTCGAAAAAAAA
59727528 TCTTTGCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 12 0.16
88 62 0.84
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (87 bp):
TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTTATGT
CTTTTTCGAAAAAAAACTGTAC
Found at i:59729275 original size:18 final size:17
Alignment explanation
Indices: 59729252--59729288 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
59729242 AATATGTACG
*
59729252 TAATAATATTTTTACATA
1 TAATAATATTCTT-CATA
59729270 TAATAATATTCTTCATA
1 TAATAATATTCTTCATA
59729287 TA
1 TA
59729289 CATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATAATATTCTTCATA
Found at i:59755547 original size:16 final size:18
Alignment explanation
Indices: 59755528--59755562 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59755518 TTTCTTTATG
59755528 TAAA-ATATC-TGTACTA
1 TAAAGATATCTTGTACTA
59755544 TAAAGATATCTTGTACTA
1 TAAAGATATCTTGTACTA
59755562 T
1 T
59755563 TTTCTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
TAAAGATATCTTGTACTA
Found at i:59755549 original size:45 final size:45
Alignment explanation
Indices: 59755498--59755591 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
59755488 TTTGCTTTCA
*
59755498 ATAAAGATATCTTGTACTATTTTCTTTATGTAAAATATCTGTACT
1 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
59755543 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
1 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
59755588 ATAA
1 ATAA
59755592 CTCTGTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (45 bp):
ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
Found at i:59757654 original size:21 final size:22
Alignment explanation
Indices: 59757628--59757673 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
59757618 TGCAAAAATT
* * *
59757628 AAAAATCTG-TAAATTTTTTTA
1 AAAAATATGATAAAATTATTTA
59757649 AAAAATATGATAAAATTATTTA
1 AAAAATATGATAAAATTATTTA
59757671 AAA
1 AAA
59757674 TTTTCATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAAATATGATAAAATTATTTA
Found at i:59757691 original size:19 final size:19
Alignment explanation
Indices: 59757667--59757703 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
59757657 GATAAAATTA
59757667 TTTAAA-ATTTTCATAAAAT
1 TTTAAAGATTTTCA-AAAAT
59757686 TTTAAAGATTTTCAAAAA
1 TTTAAAGATTTTCAAAAA
59757704 AAAAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTAAAGATTTTCAAAAAT
Found at i:59757704 original size:20 final size:19
Alignment explanation
Indices: 59757667--59757704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
59757657 GATAAAATTA
*
59757667 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCAAAAAAT
59757686 TTTAAAGATTTTCAAAAAA
1 TTTAAA-ATTTTCAAAAAA
59757705 AAAAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTAAAATTTTCAAAAAAT
Found at i:59761761 original size:15 final size:15
Alignment explanation
Indices: 59761736--59761768 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59761726 GGCCCAATTA
59761736 CAACACCCAATA-CC
1 CAACACCCAATAGCC
59761750 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
59761766 CAA
1 CAA
59761769 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:59763055 original size:28 final size:29
Alignment explanation
Indices: 59762991--59763055 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
59762981 TATATTTACT
59762991 TATGTA-ATTTTAAATATGTGTCTTATTA
1 TATGTATATTTTAAATATGTGTCTTATTA
* *
59763019 TAT-TAATATTATTATATATTTG-CTTA-TA
1 TATGT-ATATT-TTAAATATGTGTCTTATTA
59763047 TATGTATAT
1 TATGTATAT
59763056 ATGTTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 1 0.03
28 13 0.42
29 8 0.26
30 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
TATGTATATTTTAAATATGTGTCTTATTA
Found at i:59763271 original size:17 final size:17
Alignment explanation
Indices: 59763232--59763271 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
59763222 CATGCACATT
*
59763232 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
59763249 TATATATTTATATAATA
1 TTTATATGTATATAATA
59763266 TTTATA
1 TTTATA
59763272 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:59774766 original size:24 final size:24
Alignment explanation
Indices: 59774739--59774787 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59774729 AAAATTTCTA
59774739 AATAATATAGGGACCTGAAACATG
1 AATAATATAGGGACCTGAAACATG
59774763 AATAATATAGGGACCTGAAACATG
1 AATAATATAGGGACCTGAAACATG
59774787 A
1 A
59774788 CTATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (24 bp):
AATAATATAGGGACCTGAAACATG
Found at i:59775470 original size:46 final size:46
Alignment explanation
Indices: 59775407--59775743 Score: 163
Period size: 44 Copynumber: 7.6 Consensus size: 46
59775397 ATTATACAGG
* *
59775407 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGG
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
** * ** * *
59775453 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* *** **
59775497 TCCTATCTCCCTGAGATTACACGTGGAGC-GAATTAA-AA-TAAATGA
1 TCTTATCTCCCTGAGATTACA-GTGGAGCAGACCGAAGAATTTCA-GA
* ** * * * *
59775542 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCAGA
* * *
59775583 TCTTATCACCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* ** *
59775629 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG----CCAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAG--A
* * ** *
59775673 TCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
*
59775717 TCTTATCTCCCTGAGATTACAGCGGAG
1 TCTTATCTCCCTGAGATTACAGTGGAG
59775744 TAGATTGAAG
Statistics
Matches: 223, Mismatches: 47, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
41 27 0.12
42 4 0.02
43 2 0.01
44 94 0.42
45 26 0.12
46 69 0.31
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:59775693 original size:44 final size:44
Alignment explanation
Indices: 59775628--59775774 Score: 213
Period size: 44 Copynumber: 3.3 Consensus size: 44
59775618 AGAATTTCAG
* * ** *
59775628 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
59775672 ATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
59775716 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
* *
59775760 ATCCTATCTCTCTGA
1 ATCTTATCTCCCTGA
59775775 AGTTGCAATT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
Found at i:59775808 original size:88 final size:89
Alignment explanation
Indices: 59775453--59775836 Score: 238
Period size: 88 Copynumber: 4.4 Consensus size: 89
59775443 GAATTTCAGG
* * *
59775453 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAG-CTAGTAATCCTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGAC-AGAAATCCTATCTCTCTGAGATTAC
*
59775517 -ACGTGGAGC-GAATT-AAAATA-AATGA
65 AAC--GGAGCAG-ATTGAAAATAGCA-GA
* * * * * * * * * *
59775542 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG--GTCTTATCACCCTGAGGTTAC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTAC
** * ** **
59775603 AGTGGAGTAGACCGAAGAATTTCAGA
65 AACGGAGCAGATTGAA-AATAGCAGA
* * * * *
59775629 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTACA
* * *
59775694 GCGGAGCAGATTGAAGATAGTA-A
66 ACGGAGCAGATTGAAAATAGCAGA
* * *
59775717 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTCTCTGA-AGTTGC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGA-TTAC
** *
59775781 AATTGAGCGGATT-AAAATCA-CAGA
65 AACGGAGCAGATTGAAAAT-AGCAGA
* * *
59775805 TCTTATCTCTCTGA-ATTTGCAGCAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGCGGAGTAGAT
59775837 CGCATCCAGT
Statistics
Matches: 227, Mismatches: 53, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
85 5 0.02
86 20 0.09
87 40 0.18
88 100 0.44
89 33 0.15
90 29 0.13
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTACA
ACGGAGCAGATTGAAAATAGCAGA
Found at i:59776229 original size:15 final size:15
Alignment explanation
Indices: 59776204--59776236 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59776194 GGCCCAATTA
59776204 CAACACCCAATA-CC
1 CAACACCCAATAGCC
59776218 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
59776234 CAA
1 CAA
59776237 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:59777396 original size:3 final size:3
Alignment explanation
Indices: 59777373--59777427 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
59777363 TTTAGCAATT
* *
59777373 TTA TT- TTA TTG TTA CTA TTA TTA TTA TTA TTA -TA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
59777417 TCA TTG TTA TT
1 TTA TTA TTA TT
59777428 CTCATTATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:59777408 original size:17 final size:18
Alignment explanation
Indices: 59777373--59777413 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
59777363 TTTAGCAATT
*
59777373 TTATT-TTATTGTTACTA
1 TTATTATTATTATTACTA
59777390 TTATTATTATTATTA-TA
1 TTATTATTATTATTACTA
59777407 TTATTAT
1 TTATTAT
59777414 ATATCATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATTACTA
Found at i:59777738 original size:17 final size:17
Alignment explanation
Indices: 59777699--59777738 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
59777689 CATGCACATT
*
59777699 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
59777716 TATATATTTATATAATA
1 TTTATATGTATATAATA
59777733 TTTATA
1 TTTATA
59777739 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:59784520 original size:20 final size:21
Alignment explanation
Indices: 59784497--59784544 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
59784487 CACATTATCA
* *
59784497 TATATAAAATAAT-ATATAAT
1 TATATAAAAAAATAAAATAAT
*
59784517 TATA-AAAAAAATAAAATATT
1 TATATAAAAAAATAAAATAAT
59784537 TATATAAA
1 TATATAAA
59784545 TGAATAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TATATAAAAAAATAAAATAAT
Found at i:59785242 original size:30 final size:30
Alignment explanation
Indices: 59785201--59785268 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
59785191 ACCGAATGGT
* *
59785201 ACAGAGCAAAGCAGAACTGAACAGAACAAA
1 ACAGAGCAAAGCAAAACAGAACAGAACAAA
* * *
59785231 ACAGAGTAAAGCAAAACAGAACAGAGCAGA
1 ACAGAGCAAAGCAAAACAGAACAGAACAAA
59785261 ACAGAGCA
1 ACAGAGCA
59785269 TGTATGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.19, G:0.22, T:0.03
Consensus pattern (30 bp):
ACAGAGCAAAGCAAAACAGAACAGAACAAA
Found at i:59786053 original size:42 final size:42
Alignment explanation
Indices: 59786006--59786088 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
59785996 GACCTAGACA
* *
59786006 CACGCCCATGTCCTTGCCCGTATGGCTCACACGGGCTAGGCG
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
* *
59786048 CACGCCCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGC
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGC
59786089 ACACACACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (42 bp):
CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
Found at i:59786246 original size:104 final size:106
Alignment explanation
Indices: 59786053--59786281 Score: 306
Period size: 104 Copynumber: 2.2 Consensus size: 106
59786043 AGGCGCACGC
* *
59786053 CCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
*
59786118 CCTAAATCATAAACAGTGAGTTACATAGCCTGGACACA-AGT
66 CCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACA-T
* * ** *
59786159 CCATGTCCTTGCCCGTGTGGCTCACACGGCCT-GAGCACACGC-C-CATGTCC-CTGGCTGTGTG
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAG-GCACACACACTCATG-CCTCTAGCCATGTA
*
59786220 GTCCTAAATCATAAACAGTGAGTTACACGGCCTGGACACACAT
64 GTCCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACAT
*
59786263 CCATGTCCTTGCCTGTGTG
1 CCATGTCCTTGCCCGTGTG
59786282 AACCCTACAC
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
104 68 0.62
105 5 0.05
106 37 0.34
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (106 bp):
CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
CCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACAT
Found at i:59788242 original size:45 final size:45
Alignment explanation
Indices: 59788170--59788271 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 45
59788160 TAAAAGATGT
* *
59788170 TATGACATCATGATAAGGATAAGTAAGACAATAGCAGAAAGATAC
1 TATGACATCATGATAAGAATAAGTAAGACAATAGCAGAAAGACAC
* * * ** *
59788215 TATGACATCATGATATA-AATGATTAAGACCATAGTTGAAAGACGC
1 TATGACATCATGATA-AGAATAAGTAAGACAATAGCAGAAAGACAC
*
59788260 TATGGCATCATG
1 TATGACATCATG
59788272 GTAAATAGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (45 bp):
TATGACATCATGATAAGAATAAGTAAGACAATAGCAGAAAGACAC
Found at i:59788460 original size:27 final size:27
Alignment explanation
Indices: 59788393--59788477 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
59788383 ACATCATAGT
* *
59788393 TAGTTTGACAGGACATTAAAAATGGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* ** ** *
59788420 GAGACCGATGGGACATTAAAGATAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* *
59788447 TAGTTCGACAGGACATTAAATACAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
59788474 TAGT
1 TAGT
59788478 CTGCCGGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (27 bp):
TAGTTCGACAGGACATTAAAAATAGGA
Found at i:59790045 original size:18 final size:18
Alignment explanation
Indices: 59790022--59790060 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59790012 ATGATGGAAG
59790022 CAACGAATGAATGAGTAA
1 CAACGAATGAATGAGTAA
*
59790040 CAACGAATGAATGGGTAA
1 CAACGAATGAATGAGTAA
59790058 CAA
1 CAA
59790061 AGAACACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.23, T:0.15
Consensus pattern (18 bp):
CAACGAATGAATGAGTAA
Found at i:59792929 original size:38 final size:38
Alignment explanation
Indices: 59792871--59792944 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
59792861 GTTTAACCTT
*
59792871 ACAATCTCCCTTAAGATTTCTACCCAAAATCTTAAGATC
1 ACAATCTCCCTTAAGATTTCTACCC-AAACCTTAAGATC
*
59792910 ACAA-CTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 ACAATCTCCCTTAAGATTTCTACCCAAACCTTAAGA
59792945 CTCAACCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 10 0.30
38 19 0.58
39 4 0.12
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (38 bp):
ACAATCTCCCTTAAGATTTCTACCCAAACCTTAAGATC
Found at i:59793574 original size:20 final size:19
Alignment explanation
Indices: 59793549--59793609 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
59793539 TTGACTTGTT
59793549 TTAAAACAGTTTTAACTTGA
1 TTAAAACA-TTTTAACTTGA
**
59793569 TTAAAA-ATGTTTAACTCAA
1 TTAAAACAT-TTTAACTTGA
* *
59793588 TTGAAACTTTTTTAACTTGA
1 TTAAAAC-ATTTTAACTTGA
59793608 TT
1 TT
59793610 TTATCATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 16 0.50
21 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (19 bp):
TTAAAACATTTTAACTTGA
Found at i:59794249 original size:124 final size:124
Alignment explanation
Indices: 59794003--59794379 Score: 612
Period size: 124 Copynumber: 3.0 Consensus size: 124
59793993 TTAGGGTTTT
* * *
59794003 TAGATCCTGGAAGAAAT-AATTTTGAGTTGACGTTTTTGATCAAATAGTATAAAATCGCTTCTAG
1 TAGATCATGGAAGAAATAAATTTT--TTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAG
*
59794067 CAGGATACTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
64 CAGGATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
59794128 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGATCATGGAAGAAATAAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * * *
59794193 GGATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCGTGCACACGCTTTTGCTACAG
66 GGATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
59794252 TCGATCATGGAAGAAATAATTTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGATCATGGAAGAAATAAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCA
59794317 GGATACTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATACTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
59794377 TAG
1 TAG
59794380 CATGTTTGGG
Statistics
Matches: 231, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
124 176 0.76
125 49 0.21
126 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TAGATCATGGAAGAAATAAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:59797535 original size:23 final size:22
Alignment explanation
Indices: 59797520--59798028 Score: 492
Period size: 23 Copynumber: 23.0 Consensus size: 22
59797510 TTAACTTAGT
* *
59797520 TTAGGGTTTTTAA-TTAACTTAGT
1 TTAGGGTTTTTAAGTTAA--TGGG
59797543 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59797564 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
**
59797587 TTAGGAATTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
59797608 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59797629 TTTAGGGTTTTTAAGTTAA-GTGT
1 -TTAGGGTTTTTAAGTTAATG-GG
* *
59797652 TTAGGGTTTCTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59797675 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59797696 TTAGAGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59797717 TTTAGGGTTTTTAAGTTAA-GGT
1 -TTAGGGTTTTTAAGTTAATGGG
*
59797739 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59797762 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
* *
59797783 TTTAGGGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTTAA-TGGG
* *
59797807 TTAGGGTTTTTAAGTTAACGGT
1 TTAGGGTTTTTAAGTTAATGGG
*
59797829 TTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTT-AA-TGGG
* * *
59797852 TTAGGGTTTTTAATTTAATTAGA
1 TTAGGGTTTTTAAGTTAA-TGGG
* *
59797875 TTAGGGTTTTTAA-TTAGGTAGG
1 TTAGGGTTTTTAAGTTA-ATGGG
*
59797897 TTAAGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
* *
59797918 TTAGGATTTTTAAGTTAA-GAGT
1 TTAGGGTTTTTAAGTTAATG-GG
* * *
59797940 TTATGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59797963 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59797984 TTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTT-AA-TGGG
59798007 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
59798028 T
1 T
59798029 ATTAATGGTT
Statistics
Matches: 419, Mismatches: 42, Indels: 52
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.00
21 126 0.30
22 122 0.29
23 158 0.38
24 11 0.03
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAATGGG
Found at i:59797705 original size:66 final size:65
Alignment explanation
Indices: 59797520--59798028 Score: 550
Period size: 66 Copynumber: 7.7 Consensus size: 65
59797510 TTAACTTAGT
*
59797520 TTAGGGTTTTTAA-TTAACTTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAA--TAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-G
59797584 GGG
63 GGG
** * *
59797587 TTAGGAATTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGTG
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
*
59797651 T
65 G
* ** *
59797652 TTAGGGTTTCTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
59797717 T
65 G
59797718 TTAGGGTTTTTAAGTT-A-AGGTTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAAGTTAATAGG-TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAG
*
59797781 GGT
63 GGG
* *
59797784 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAACGGTTTAGGGTTTTTAA-TTAAAT
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTT-AA-
**
59797848 TAGG
62 GGGG
* * * *
59797852 TTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAA-TTAGGTAGGTTAAGGTTTTTAAGTTAA-
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAG--GGTTAGGGTTTTTAAGTTAAG
59797915 GGG
63 GGG
* * * * * *
59797918 TTAGGATTTTTAAGTTAAGAGTTTATGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-G
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGG
59797982 GG
64 GG
59797984 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTTAAGGGT
59798029 ATTAATGGTT
Statistics
Matches: 383, Mismatches: 39, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.01
64 18 0.05
65 59 0.15
66 152 0.40
67 74 0.19
68 73 0.19
69 5 0.01
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (65 bp):
TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGG
Found at i:59797787 original size:45 final size:44
Alignment explanation
Indices: 59797543--59798027 Score: 547
Period size: 44 Copynumber: 11.0 Consensus size: 44
59797533 TTAACTTAGT
59797543 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
** *
59797587 TTAGGAATTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* *
59797630 TTAGGGTTTTTAAGTTAAGTGTTTAGGGTTTCTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGGG
* *
59797675 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAA-GGGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
*
59797718 TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* ***
59797762 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGGG
* ***
59797807 TTAGGGTTTTTAAGTTAACGGTTTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTT-AAGGGGG
* * * *
59797852 TTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAA-TT-AGGTAGG
1 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGG-GGG
* * * *
59797897 TTAAGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAA-GAGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* * *
59797940 TTATGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGGGGG
*
59797984 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGG
59798028 TATTAATGGT
Statistics
Matches: 386, Mismatches: 40, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
43 93 0.24
44 139 0.36
45 135 0.35
46 19 0.05
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
Found at i:59798073 original size:9 final size:9
Alignment explanation
Indices: 59798055--59798091 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
59798045 ATTCTCAAAT
59798055 AATA-TCAA
1 AATATTCAA
59798063 AATATTCAA
1 AATATTCAA
59798072 AATATTCAA
1 AATATTCAA
59798081 AATATTCAA
1 AATATTCAA
59798090 AA
1 AA
59798092 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATTCAA
Found at i:59798122 original size:25 final size:25
Alignment explanation
Indices: 59798094--59798141 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
59798084 ATTCAAAAAT
*
59798094 TTCTATTTTATTACATTAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
59798119 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
59798142 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:59798593 original size:18 final size:18
Alignment explanation
Indices: 59798570--59798609 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
59798560 GGCTCGAAAA
*
59798570 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
59798588 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
59798606 AGGA
1 AGGA
59798610 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:59799484 original size:20 final size:20
Alignment explanation
Indices: 59799447--59799484 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59799437 TTTATTTTTA
*
59799447 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
59799467 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
59799485 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:59800483 original size:11 final size:11
Alignment explanation
Indices: 59800469--59800504 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
59800459 GAATTTTGGA
59800469 AGGAAATTGAG
1 AGGAAATTGAG
*
59800480 AGGAACTTGAG
1 AGGAAATTGAG
59800491 AGGAAATATGAG
1 AGGAAAT-TGAG
59800503 AG
1 AG
59800505 AGGATTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.44, C:0.03, G:0.36, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:59803679 original size:22 final size:24
Alignment explanation
Indices: 59803629--59803679 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
59803619 TTGCAATGCT
59803629 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
59803654 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
59803675 TTTAT
1 TTTAT
59803680 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:59810143 original size:26 final size:26
Alignment explanation
Indices: 59810094--59810143 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
59810084 CTTTATATTG
*
59810094 TTTTTTAAAAAATTGATAGTTAAACT
1 TTTTTTAAAAAATTGATAGCTAAACT
* *
59810120 TTTTTTAAAAATTTGGTAGCTAAA
1 TTTTTTAAAAAATTGATAGCTAAA
59810144 TTTGTCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (26 bp):
TTTTTTAAAAAATTGATAGCTAAACT
Found at i:59813525 original size:18 final size:18
Alignment explanation
Indices: 59813502--59813537 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59813492 ACCAACATTC
*
59813502 GTTACACACCACAGTAAG
1 GTTACACACCACAATAAG
59813520 GTTACACACCACAATAAG
1 GTTACACACCACAATAAG
59813538 AGTTCTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.17
Consensus pattern (18 bp):
GTTACACACCACAATAAG
Found at i:59815635 original size:56 final size:56
Alignment explanation
Indices: 59815549--59815661 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
59815539 CCATTTTTAT
* * *
59815549 TGTTAAAAACTAGTCCCTTATGTCAGCATGAGATACATGTGACACGTCAAGTGTAA
1 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
*
59815605 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCATGTGTAA
1 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
59815661 T
1 T
59815662 TGGTTCGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (56 bp):
TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
Found at i:59815741 original size:29 final size:29
Alignment explanation
Indices: 59815708--59815766 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
59815698 ATTGAATCGA
*
59815708 AAGAAATTTTTAATAAAAAAGACCAACTT
1 AAGAAATTTTTAACAAAAAAGACCAACTT
*
59815737 AAGAAATTTTTAACAAAAAAGACTAACTT
1 AAGAAATTTTTAACAAAAAAGACCAACTT
59815766 A
1 A
59815767 CTTTTTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (29 bp):
AAGAAATTTTTAACAAAAAAGACCAACTT
Found at i:59817497 original size:18 final size:18
Alignment explanation
Indices: 59817474--59817509 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59817464 TTCAGAGTAA
59817474 GAGAAACTGACTCTAGGT
1 GAGAAACTGACTCTAGGT
* *
59817492 GAGAAATTGGCTCTAGGT
1 GAGAAACTGACTCTAGGT
59817510 TGATTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (18 bp):
GAGAAACTGACTCTAGGT
Found at i:59817922 original size:22 final size:23
Alignment explanation
Indices: 59817897--59817944 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
59817887 CCATAAGAAA
*
59817897 CAAAGAAACTCATAATAA-A-CTT
1 CAAAGAAA-TCAAAATAAGATCTT
59817919 CAAAGAAATCAAAATAAGATCTT
1 CAAAGAAATCAAAATAAGATCTT
59817942 CAA
1 CAA
59817945 TCTTGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (23 bp):
CAAAGAAATCAAAATAAGATCTT
Found at i:59820809 original size:5 final size:5
Alignment explanation
Indices: 59820799--59820826 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
59820789 TTAAAAATCT
59820799 TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TAT
59820827 TTAATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:59825360 original size:28 final size:30
Alignment explanation
Indices: 59825286--59825363 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
59825276 GCTTAAACAA
59825286 CAAAATGGTACCTAAACTATATTAATTTTCT
1 CAAAATGGTACCTAAACTATATT-ATTTTCT
* * *
59825317 CAAATTGGTACTTAAACT-T-TT-TTTTGT
1 CAAAATGGTACCTAAACTATATTATTTTCT
59825344 CAAAATCGGTACCTAAACTA
1 CAAAAT-GGTACCTAAACTA
59825364 GTCAACCGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 10 0.25
28 11 0.28
29 2 0.05
30 1 0.03
31 16 0.40
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (30 bp):
CAAAATGGTACCTAAACTATATTATTTTCT
Found at i:59830468 original size:25 final size:25
Alignment explanation
Indices: 59830434--59830483 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59830424 AAGAAGAAAG
59830434 AATAAAATATGTTCATCTTTTATTT
1 AATAAAATATGTTCATCTTTTATTT
59830459 AATAAAATATGTTCATCTTTTATTT
1 AATAAAATATGTTCATCTTTTATTT
59830484 TACTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
AATAAAATATGTTCATCTTTTATTT
Found at i:59847220 original size:14 final size:14
Alignment explanation
Indices: 59847201--59847240 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
59847191 TTGATTGGCA
59847201 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
59847215 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
59847229 GAAAAATGTTTT
1 GTAAAATGTTTT
59847241 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:59847249 original size:20 final size:20
Alignment explanation
Indices: 59847224--59847263 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59847214 CGTAAAATGA
*
59847224 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
59847244 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
59847264 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:59847386 original size:20 final size:20
Alignment explanation
Indices: 59847361--59847399 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59847351 GTTTTTACAT
59847361 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
59847381 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
59847400 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:59854834 original size:16 final size:16
Alignment explanation
Indices: 59854813--59854848 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59854803 CTTTCTTTGC
59854813 CCAAGCCGAGCCACCT
1 CCAAGCCGAGCCACCT
* *
59854829 CCAAGCCGAGTCACGT
1 CCAAGCCGAGCCACCT
59854845 CCAA
1 CCAA
59854849 TTCGAGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.44, G:0.19, T:0.08
Consensus pattern (16 bp):
CCAAGCCGAGCCACCT
Found at i:59857900 original size:18 final size:16
Alignment explanation
Indices: 59857877--59857934 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
59857867 AAAGAATTGC
59857877 AAATAAATAACTAATAG
1 AAATAAATAACTAA-AG
59857894 TAAATAAATAACTAAAG
1 -AAATAAATAACTAAAG
* * *
59857911 GAATAAATAAATAAGG
1 AAATAAATAACTAAAG
59857927 ATAATAAA
1 A-AATAAA
59857935 ATGCAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.37
17 8 0.23
18 14 0.40
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (16 bp):
AAATAAATAACTAAAG
Found at i:59862659 original size:24 final size:24
Alignment explanation
Indices: 59862632--59862684 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
59862622 TTTACATTAG
59862632 ATTAAAGAATAAGTTGATCCTTCT
1 ATTAAAGAATAAGTTGATCCTTCT
59862656 ATTAAAGAATAAGTTGATCCTTCT
1 ATTAAAGAATAAGTTGATCCTTCT
59862680 ATTAA
1 ATTAA
59862685 TCTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (24 bp):
ATTAAAGAATAAGTTGATCCTTCT
Found at i:59867492 original size:15 final size:14
Alignment explanation
Indices: 59867468--59867499 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
59867458 AACACATTCT
59867468 TTTATTTATTTTTA
1 TTTATTTATTTTTA
59867482 TTTATTTTATTTTTA
1 TTTA-TTTATTTTTA
59867497 TTT
1 TTT
59867500 CATCTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:59874334 original size:26 final size:26
Alignment explanation
Indices: 59874298--59874353 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
59874288 AATGGTAAGA
*
59874298 TAAATATATATAAAATT-TTAATAAAT
1 TAAAAATATATAAAATTATTAA-AAAT
* *
59874324 TAAAAATATATGAAATTATTAAATAT
1 TAAAAATATATAAAATTATTAAAAAT
59874350 TAAA
1 TAAA
59874354 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAAATATATAAAATTATTAAAAAT
Found at i:59875060 original size:25 final size:25
Alignment explanation
Indices: 59875023--59875078 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
59875013 CAAGAAAAAT
* *
59875023 CACAAAACTCATCAATCCTTTAGAA
1 CACAAAACCCATCAATCCATTAGAA
*
59875048 CACAATACCCATCAATCCATTAGAA
1 CACAAAACCCATCAATCCATTAGAA
59875073 CA-AAAA
1 CACAAAA
59875079 TTCCAGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.20
Consensus pattern (25 bp):
CACAAAACCCATCAATCCATTAGAA
Found at i:59887290 original size:46 final size:46
Alignment explanation
Indices: 59887223--59887311 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
59887213 GCTGCTGTAC
*
59887223 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
**
59887269 AAGCCCAATCTGAACCAGCCCAAACCCAAGACTTAAAACAGAC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGAC
59887312 TTAACCCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.37, G:0.11, T:0.08
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:59901974 original size:168 final size:170
Alignment explanation
Indices: 59901601--59902191 Score: 1034
Period size: 169 Copynumber: 3.5 Consensus size: 170
59901591 GTTTATTATA
59901601 CAGGTCTTATCT-CCTGAGATTACAGTGGAAACAGACCAAAGAATTTCAGATCTTATCTCCCT-A
1 CAGGTCTTATCTCCCTGAGATTACAGTGG-AACAGACCAAAGAATTTCAGATCTTATCTCCCTGA
*
59901664 GATTACAGCGGAGCAGATCAAGGATAGTAATCATATCTCCTTGAGATTACAATGGAGCGGATTAA
65 GATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAA
59901729 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
130 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
59901770 CAGGTCTTATCTCCCTGA-ATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATTCTCCCTGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTA-TCTCCCTGA
*
59901834 GATTACAGCGGAGCAGATCAAGGATTG-AATCCTATCTCCTTGAGATTACAATGGAGCGGATTAA
65 GATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAA
59901898 AGGATCTTATCTCTCTGAAGTTACAGTAGAG-AG-TCACAT
130 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
59901937 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATTCTTATCTCCCTGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA-TCTTATCTCCCTGA
59902002 GATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGACTTACAATGGAGCGGATTA
65 GATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGA-TTACAATGGAGCGGATTA
59902067 AAGGATCTTATCTCTCTG-AGTTACAGTAGAGAAGATCACAT
129 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
*
59902108 CACGTCTCTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATTTCAGATCTTATCTCCCTG
1 CAGGTCT-TATCTCCCTGAGATTACAGTGGAACAGACCAAAG-AATTTCAGATCTTATCTCCCTG
* *
59902173 AGGTTACAGTGGAGCAGAT
64 AGATTACAGCGGAGCAGAT
59902192 TGAAGCCAGA
Statistics
Matches: 405, Mismatches: 6, Indels: 19
0.94 0.01 0.04
Matches are distributed among these distances:
167 24 0.06
168 94 0.23
169 132 0.33
170 70 0.17
171 12 0.03
172 64 0.16
173 9 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (170 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
Found at i:59902255 original size:44 final size:44
Alignment explanation
Indices: 59901991--59902275 Score: 130
Period size: 44 Copynumber: 6.6 Consensus size: 44
59901981 TTCAGATTCT
*
59901991 TATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGATAGTA-ATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAA-GACAG-AGATCC
* ** * * *
59902035 TATCTCCTTGAGACTTACAATGGAGCGGAT--TA-A-AG-GATCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAGAGATCC
* ** * * *
59902075 TATCTCTCTGAG-TTACAGTAGAGAAGATC-ACA-TCA-CG-TCTC
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGA-AGACAGAGATC-C
* * * * * * *
59902116 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATTTCAGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---GAGATCC
* * * * *
59902163 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCC
**
59902207 TATCTCCCTGAGATTCACAGCGGAGCAGATCGAAGACA-CTATCC
1 TATCTCCCTGAGATT-ACAGCGGAGCAGATCGAAGACAGAGATCC
*
59902251 TATCTCCCTGA-AGTTACAGTGGAGC
1 TATCTCCCTGAGA-TTACAGCGGAGC
59902276 GGATTAAAAT
Statistics
Matches: 184, Mismatches: 40, Indels: 35
0.71 0.15 0.14
Matches are distributed among these distances:
38 12 0.07
40 16 0.09
41 15 0.08
42 15 0.08
43 12 0.07
44 49 0.27
45 32 0.17
47 31 0.17
48 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCC
Found at i:59902970 original size:41 final size:41
Alignment explanation
Indices: 59902893--59902973 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
59902883 GGCAGCTGTA
* *
59902893 CAGCCCAATCTGAACTAGCCAAACCCAAGACCAAACAGACC
1 CAGCCCAATCTGAACCAGCCAAACCCAAGACAAAACAGACC
*
59902934 CAGCCCAAT-TGAACCAGCCCAAA-CCAAGATTAAAACAGAC
1 CAGCCCAATCTGAACCAG-CCAAACCCAAGA-CAAAACAGAC
59902974 TTAACCCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 13 0.37
41 22 0.63
ACGTcount: A:0.43, C:0.36, G:0.12, T:0.09
Consensus pattern (41 bp):
CAGCCCAATCTGAACCAGCCAAACCCAAGACAAAACAGACC
Found at i:59903996 original size:16 final size:17
Alignment explanation
Indices: 59903966--59904025 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
59903956 TTTTTACTCA
59903966 TCTATTCATTATTATATT
1 TCTATT-ATTATTATATT
*
59903984 TCTATTA-TATTATTTT
1 TCTATTATTATTATATT
* *
59904000 TGTATTATTATTAT-TA
1 TCTATTATTATTATATT
59904016 TC-ATTATTAT
1 TCTATTATTAT
59904026 AGTTGCTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 8 0.22
16 16 0.43
17 7 0.19
18 6 0.16
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (17 bp):
TCTATTATTATTATATT
Found at i:59904335 original size:27 final size:25
Alignment explanation
Indices: 59904303--59904367 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
59904293 TATGTGTCCC
*
59904303 ATTTTTATATAT-ATGTAAATCTCCAT
1 ATTTTTATATATCATATAAAT-T-CAT
*
59904329 ATATTTTACATATGCATATAAATTCAT
1 AT-TTTTATATAT-CATATAAATTCAT
59904356 ATTTTTATATAT
1 ATTTTTATATAT
59904368 TTTATAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 11 0.33
27 14 0.42
28 1 0.03
29 7 0.21
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (25 bp):
ATTTTTATATATCATATAAATTCAT
Found at i:59904542 original size:5 final size:5
Alignment explanation
Indices: 59904528--59904558 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
59904518 ACATAAGTGC
59904528 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
59904559 GTTTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:59908005 original size:46 final size:44
Alignment explanation
Indices: 59907938--59908266 Score: 184
Period size: 46 Copynumber: 7.6 Consensus size: 44
59907928 ATAATACAGG
59907938 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAGTTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA--TTCAGA
* * *
59907984 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAG--A
* * * * * **
59908028 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
* * * * *
59908067 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGATTCAGA
*
59908108 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG-A-TTCAGA
* * *** ****
59908154 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
* * * * *
59908198 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCA-GA
*
59908241 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
59908267 GTGGATTAAA
Statistics
Matches: 223, Mismatches: 43, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 28 0.13
42 5 0.02
43 25 0.11
44 69 0.31
46 70 0.31
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
Found at i:59908262 original size:43 final size:44
Alignment explanation
Indices: 59907981--59908267 Score: 140
Period size: 44 Copynumber: 6.7 Consensus size: 44
59907971 AAAGAGTTTC
* * * *
59907981 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAG
* * * *
59908025 TA-ATCCTATCTCCTTG-AGATTACAATGGAGCGGAT--TA-A-AG
1 -AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAG
* * * * *
59908065 -GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC-ACA-TCAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGA-AGACAG
* * * *
59908107 -G-TCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCA-
1 AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAG-A---CAG
* * * *
59908152 A-ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
* *
59908195 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAG
**
59908238 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAG
59908268 TGGATTAAAA
Statistics
Matches: 188, Mismatches: 35, Indels: 40
0.71 0.13 0.15
Matches are distributed among these distances:
39 23 0.12
40 6 0.03
41 28 0.15
42 7 0.04
43 25 0.13
44 65 0.35
45 1 0.01
46 32 0.17
47 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
Found at i:59908287 original size:87 final size:88
Alignment explanation
Indices: 59908108--59908307 Score: 208
Period size: 87 Copynumber: 2.3 Consensus size: 88
59908098 TCACATCAGG
* * *
59908108 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAAATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAAATCCTATCTCCCTGAAGTTA
* **
59908173 CAGTGGAGCAGATTGAAGCCAGAGA
64 CAGTGGAGCAGATTAAAGAAAGAGA
* * * *
59908198 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCA-AATCCTATCTCCCTGAAGTTAC
** *
59908261 AGTGGAGTGGATTAAAATAAAG-GA
65 AGTGGAGCAGATT-AAAGAAAGAGA
* *
59908285 TCTTATCTCTCTGAGGTTACAGC
1 TCTTATCTCCCTGAGATTACAGC
59908308 AGAGTAGGTC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 53 0.57
88 4 0.04
89 1 0.01
90 33 0.35
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAAATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAGAAAGAGA
Found at i:59912038 original size:14 final size:14
Alignment explanation
Indices: 59912019--59912048 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59912009 CTTACTTACC
59912019 GACATGATTTGAGT
1 GACATGATTTGAGT
59912033 GACATGATTTGAGT
1 GACATGATTTGAGT
59912047 GA
1 GA
59912049 AAGTGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (14 bp):
GACATGATTTGAGT
Found at i:59921468 original size:28 final size:30
Alignment explanation
Indices: 59921437--59921500 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
59921427 TAATTTTGAT
* * *
59921437 ATAAATATATTAATTTA-TTTTTATTAA-A
1 ATAAATAAATTAACTTACTCTTTATTAATA
59921465 ATAAATAAATTAACTTACGTCTTTATTAATA
1 ATAAATAAATTAACTTAC-TCTTTATTAATA
59921496 ATAAA
1 ATAAA
59921501 CTAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
30 9 0.30
31 6 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (30 bp):
ATAAATAAATTAACTTACTCTTTATTAATA
Found at i:59922017 original size:2 final size:2
Alignment explanation
Indices: 59922004--59922036 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
59921994 GTTATTTAAG
*
59922004 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59922037 TAATTTTTTC
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:59924362 original size:3 final size:3
Alignment explanation
Indices: 59924354--59924379 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59924344 TTAATGAGTT
59924354 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
59924380 TGTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:59938385 original size:5 final size:5
Alignment explanation
Indices: 59938375--59938425 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
59938365 GGCCTGAATA
* *
59938375 TATAT TATAT TATAT TATAT TATAT TATA- AAAAT TAT-T TATAT TA-AT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
59938422 TATA
1 TATA
59938426 GATGTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 10 0.26
5 29 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:59944787 original size:20 final size:20
Alignment explanation
Indices: 59944759--59944798 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59944749 TAAGTTTTTA
* *
59944759 TTATTTATATTATGTTATTT
1 TTATATATATTATGTAATTT
59944779 TTATATATATTATGTAATTT
1 TTATATATATTATGTAATTT
59944799 AAAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTATATATATTATGTAATTT
Found at i:59951710 original size:37 final size:37
Alignment explanation
Indices: 59951660--59951736 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
59951650 CTTAACAATT
59951660 GACATTATAGTGGACTTACCACTTGATCGACCTGATC
1 GACATTATAGTGGACTTACCACTTGATCGACCTGATC
59951697 GACATTATAGTGGACTTACCACTTGATCGACCTGATC
1 GACATTATAGTGGACTTACCACTTGATCGACCTGATC
59951734 GAC
1 GAC
59951737 CACATAGGCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (37 bp):
GACATTATAGTGGACTTACCACTTGATCGACCTGATC
Found at i:59956816 original size:86 final size:85
Alignment explanation
Indices: 59956691--59956850 Score: 293
Period size: 86 Copynumber: 1.9 Consensus size: 85
59956681 ATAACAAAAA
59956691 AAATTTCGTGACACTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
1 AAATTTCGTGACACTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
59956756 AAGTAAAAAAATTAAAAATC
66 AAGTAAAAAAATTAAAAATC
* *
59956776 AAATTTTGTGACGCTTTAGAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTA
1 AAATTTCGTGACACTTTA-AACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTA
59956841 AAAGTAAAAA
65 AAAGTAAAAA
59956851 TTCTCACTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 16 0.22
86 56 0.78
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (85 bp):
AAATTTCGTGACACTTTAAACATCACAAAATGTGCTCTTTTTGTGACACTTTTTAATGTCACTAA
AAGTAAAAAAATTAAAAATC
Found at i:59967307 original size:25 final size:26
Alignment explanation
Indices: 59967279--59967327 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
59967269 AGAAGAAAGT
59967279 TTAAAGAACATAAAA-GAAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAAA
** *
59967304 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
59967328 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (26 bp):
TTAAAGAACATAAAACGAAAAAAAAA
Found at i:59967944 original size:22 final size:25
Alignment explanation
Indices: 59967892--59967950 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 25
59967882 TTTCAATAAA
59967892 TAAAAATATATATAATTATTAAACAT
1 TAAAAATA-ATATAATTATTAAACAT
*
59967918 T-AAAATAATATAA-TA-TAAA-TT
1 TAAAAATAATATAATTATTAAACAT
59967939 TAAAAATAATAT
1 TAAAAATAATAT
59967951 GGTCGGGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 2 0.06
24 6 0.19
25 6 0.19
26 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAATAATATAATTATTAAACAT
Found at i:59981827 original size:38 final size:38
Alignment explanation
Indices: 59981776--59981853 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
59981766 GAGATTACAA
*
59981776 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAACACCAT
59981814 CAGATTTCTATCCTTAATTATAGGGATTCCAACACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAACACCAT
59981852 CA
1 CA
59981854 ATAGTGTAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (38 bp):
CAGATTTCTATCCTTAATTATAGGGATTCCAACACCAT
Found at i:59998897 original size:37 final size:37
Alignment explanation
Indices: 59998856--59998970 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
59998846 GAACAGGGGA
*
59998856 GATTCCCTACAAATCAAAGACAGAAATGAACAAGAGT
1 GATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGT
* ** * * *
59998893 GATTCCCTGCCAAAAGCAACCA-AG-AATGAA-TAGTGA
1 GATTCCCT-AC-AAAGCAAAGACAGAAATGAACAAGAGT
* * *
59998929 GATTCCTTACAAAGCAAAGACAGATATGAACGAGAGT
1 GATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGT
59998966 GATTC
1 GATTC
59998971 TTTGCCAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
34 8 0.14
35 3 0.05
36 15 0.26
37 22 0.38
38 3 0.05
39 7 0.12
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (37 bp):
GATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGT
Found at i:59998977 original size:73 final size:73
Alignment explanation
Indices: 59998854--59999085 Score: 263
Period size: 73 Copynumber: 3.2 Consensus size: 73
59998844 ATGAACAGGG
*
59998854 GAGATTCCCTACAAATCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
59998919 TGAATAGT
66 TGAATAGT
* * * **
59998927 GAGATTCCTTACAAAGCAAAGACAGATATGAACGAGAGTGATTCTTTGCCAAAAGCAACCAAGAA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
*
59998992 TGAACAGT
66 TGAATAGT
* * ** * * * * * *
59999000 AAGGTTCCCCGCCAAGCAAAGACAAAAATGAA-TAGTA-AGATTCCCTG-CAAAAACAACTAAGA
1 GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAG-AGTGATTCCCTGCCAAAAGCAACCAAGA
* *
59999062 ATGAACAAT
65 ATGAATAGT
59999071 GAGATTCCCTACAAA
1 GAGATTCCCTACAAA
59999086 AATGTTGTAG
Statistics
Matches: 131, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
71 31 0.24
72 9 0.07
73 91 0.69
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (73 bp):
GAGATTCCCTACAAAGCAAAGACAGAAATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAGAA
TGAATAGT
Found at i:59998995 original size:37 final size:37
Alignment explanation
Indices: 59998880--59998997 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 37
59998870 CAAAGACAGA
*
59998880 AATGAACAAGAGTGATTCCCTGCCAAAAGCAACCAAG
1 AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
* * * * **
59998917 AATGAA-TAGTGAGATTCCTT-AC-AAAGCAAAGACAG
1 AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCA-AG
* *
59998952 ATATGAACGAGAGTGATTCTTTGCCAAAAGCAACCAAG
1 A-ATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
59998990 AATGAACA
1 AATGAACA
59998998 GTAAGGTTCC
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
34 8 0.13
35 4 0.07
36 15 0.25
37 22 0.36
38 4 0.07
39 8 0.13
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (37 bp):
AATGAACAAGAGTGATTCCTTGCCAAAAGCAACCAAG
Found at i:60000499 original size:23 final size:23
Alignment explanation
Indices: 60000454--60000499 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
60000444 AAAGCACAAA
*
60000454 ATTTTTTATTTAATATTCCATTT
1 ATTTTTTATTTAATATTCAATTT
*
60000477 ATTTATTTATTT-ATTTTCAATTT
1 ATTT-TTTATTTAATATTCAATTT
60000500 TTGGTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTTTATTTAATATTCAATTT
Found at i:60001931 original size:16 final size:16
Alignment explanation
Indices: 60001912--60001942 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60001902 TATTTTTCAA
*
60001912 AATTTTTATATTATAT
1 AATTTATATATTATAT
60001928 AATTTATATATTATA
1 AATTTATATATTATA
60001943 AAAACAAACT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTATATATTATAT
Found at i:60011426 original size:25 final size:25
Alignment explanation
Indices: 60011380--60011435 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
60011370 GCATTCTTTT
60011380 AAAATAATAACAAAAATGAAATA-A
1 AAAATAATAACAAAAATGAAATATA
* *
60011404 ATAAATAATAA-ATACAATTAAATATA
1 A-AAATAATAACA-AAAATGAAATATA
60011430 AAAATA
1 AAAATA
60011436 TATATACGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAATAATAACAAAAATGAAATATA
Found at i:60011823 original size:3 final size:3
Alignment explanation
Indices: 60011809--60011838 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
60011799 AATAAGTATG
*
60011809 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60011839 GACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60013624 original size:132 final size:133
Alignment explanation
Indices: 60013283--60014098 Score: 1465
Period size: 133 Copynumber: 6.2 Consensus size: 133
60013273 AGATTCGTGG
*
60013283 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
* *
60013348 CTACTCCACTAATGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCAGTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60013413 AGA
131 AGA
*
60013416 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
*
60013481 CTACTCTACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATT-GGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60013545 AGA
131 AGA
* *
60013548 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTTGGAATCTTTAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
*
60013613 CTACTCCACTACTACTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATT-GGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60013677 AGA
131 AGA
* * *
60013680 TAAGATTCACCATCTTCGATCTGCTCCACTGCTGGTTAAGGTGACAGAATCTTGGAATCTTTAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
60013745 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60013810 AGA
131 AGA
*
60013813 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
*
60013878 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60013943 AGA
131 AGA
60013946 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
* * * *
60014011 CTACTCCACTACTGTTTAGGGAGATAGTACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGA
66 CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
60014076 AGA
131 AGA
60014079 TAAGATTCACCATCTTCGAT
1 TAAGATTCACCATCTTCGAT
60014099 ATACTCCGCT
Statistics
Matches: 659, Mismatches: 23, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
132 257 0.39
133 402 0.61
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (133 bp):
TAAGATTCACCATCTTCGATCTGCTCCACTACTGGTTAGGGTGACAGAATCTTGGAATCTTCAAC
CTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
AGA
Found at i:60014141 original size:46 final size:46
Alignment explanation
Indices: 60014102--60014324 Score: 358
Period size: 46 Copynumber: 4.9 Consensus size: 46
60014092 CTTCGATATA
* * *
60014102 CTCCGCTGCCAAATACATGAAGATAAGATCTACTATCTTCGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* *
60014148 CTCCGCTACCAAATACAGGAAGACAAGATCTGCTATCTTCTATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* *
60014194 TTCCGCTGCCAAATACAGGAATACAAGATCTGCTATCTTCGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
60014240 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* *
60014286 CTCCACTGCCAAATACAGGAAGATAAGATCTGCTA-CTTC
1 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
60014325 ATTGATCTGT
Statistics
Matches: 164, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (46 bp):
CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
Found at i:60015528 original size:6 final size:7
Alignment explanation
Indices: 60015509--60015560 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 7
60015499 TTAGCCTCTC
60015509 CATTTTT
1 CATTTTT
60015516 -ACTTTTT
1 CA-TTTTT
60015523 CATTTTTT
1 CA-TTTTT
60015531 CATTTTT
1 CATTTTT
60015538 CATTTTTT
1 CA-TTTTT
*
60015546 CATTCATT
1 CATT-TTT
60015554 CATTTTT
1 CATTTTT
60015561 TTATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 1 0.03
7 16 0.42
8 21 0.55
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:60015529 original size:8 final size:8
Alignment explanation
Indices: 60015518--60015561 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
60015508 CCATTTTTAC
60015518 TTTTTCAT
1 TTTTTCAT
60015526 TTTTTCA-
1 TTTTTCAT
60015533 TTTTTCAT
1 TTTTTCAT
60015541 TTTTTCAT
1 TTTTTCAT
**
60015549 TCATTCAT
1 TTTTTCAT
60015557 TTTTT
1 TTTTT
60015562 TATATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:60015536 original size:15 final size:15
Alignment explanation
Indices: 60015509--60015561 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
60015499 TTAGCCTCTC
*
60015509 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
60015523 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
*
60015538 CATTTTTTCATTCATT
1 CATTTTTTCATT-TTT
60015554 CATTTTTT
1 CATTTTTT
60015562 TATATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.23
15 17 0.49
16 10 0.29
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:60015555 original size:23 final size:22
Alignment explanation
Indices: 60015509--60015560 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
60015499 TTAGCCTCTC
**
60015509 CATTTTTACTTTTTCATTTTTT
1 CATTTTTACTTTTTCATTCATT
*
60015531 CATTTTTCATTTTTTCATTCATT
1 CATTTTT-ACTTTTTCATTCATT
60015554 CATTTTT
1 CATTTTT
60015561 TTATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (22 bp):
CATTTTTACTTTTTCATTCATT
Found at i:60016390 original size:9 final size:9
Alignment explanation
Indices: 60016387--60016419 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
60016377 TTTTTTAATT
60016387 TTTTTTTGA
1 TTTTTTTGA
60016396 TTTTTTTG-
1 TTTTTTTGA
60016404 TTTTTTTGA
1 TTTTTTTGA
60016413 TTTTTTT
1 TTTTTTT
60016420 TTTGAGTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:60016395 original size:28 final size:28
Alignment explanation
Indices: 60016364--60016421 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
60016354 GGTTTTCGCC
60016364 TTGACCTCTCTT-TTTTTTTAATTTTTTT
1 TTGA-CTCTCTTGTTTTTTTAATTTTTTT
* * * *
60016392 TTGATTTTTTTGTTTTTTTGATTTTTTT
1 TTGACTCTCTTGTTTTTTTAATTTTTTT
60016420 TT
1 TT
60016422 TGAGTCTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.78
Consensus pattern (28 bp):
TTGACTCTCTTGTTTTTTTAATTTTTTT
Found at i:60016407 original size:17 final size:17
Alignment explanation
Indices: 60016387--60016419 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60016377 TTTTTTAATT
60016387 TTTTTTTGATTTTTTTG
1 TTTTTTTGATTTTTTTG
60016404 TTTTTTTGATTTTTTT
1 TTTTTTTGATTTTTTT
60016420 TTTGAGTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (17 bp):
TTTTTTTGATTTTTTTG
Found at i:60020201 original size:3 final size:3
Alignment explanation
Indices: 60020187--60020222 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
60020177 AATAAGTATG
*
60020187 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60020223 GACTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60025703 original size:322 final size:315
Alignment explanation
Indices: 60025085--60026756 Score: 1568
Period size: 322 Copynumber: 5.2 Consensus size: 315
60025075 AAAAAAGCTA
** * * *
60025085 TGAAAGTGGATCGAGGACGTGACCCTTCAAGAATTTTGTCTAACACCCTCCTTTATAGATATCTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCC-TT-T-GATAT-TT
* * *
60025150 TT-AAATGTGATGAACGTGGATCGAACACGTGACCTTTTGATCTTCAATCTAACGCTCTCCCAAC
62 TTAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAAC
* * * *** * *
60025214 TAAGCTGTACTCGCAACTGGGAA-TAAAAATAATAATTACATTGAGTATAAATTGCATCAAATTT
127 TGAGCTATCCTCGCAA-TTATAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTT
* * * *
60025278 CCCTTACTTGA-CCGAAC-A-ACAAAATTCAAGTTCAGTAAATGATAAATAAGCTATGAATATTT
191 CCCTTACTTGATCC-AACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTT
*
60025340 TAAAAATT-TTATTTCAACTACATTAAATGAACACTGAGGTATGGATATTTTAAAAATGTTG
255 T-AAAATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
* * *
60025401 TGAAAGTTGATCGACCAGGTAACCCTTCAAGTATTTAGTCTAACACTCTCCTCTTCAGATATTTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCT-TT--GATATTTT
* * * * * * *
60025466 TAAAATATGATGAACATGGGTCGAATACTTGGACCTTTAGATCTTCAGTCTGACACTCTTCCAAC
63 TAAAATGTGATGAACGTGGATCGAACACGT-GACCTTTAGATCTTCAATCTGACGCTCTTCCAAC
* *
60025531 TAAGCTATCCTCGCAATTATAAGTAAAAATGATAATAATTATATTGAGTATGAATTGCATCGAAT
127 TGAGCTATCCTCGCAATTATAAGT-AAAA--ATAATAATTACATTGAGTATGAATTGCATCGAAT
* *
60025596 TTCCCTTACTTGATCCAACAACACAAAATTCAAGTGCATTAAATGATAACTAAGCTGTGCATATT
189 TTCCCTTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATT
* * * * *
60025661 TTAAAATTGTTATTTCAACTACATTCAATGAAAACCGAGGTATGGATATTCTAAAAATATAG
254 TTAAAATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
* * *
60025723 TGAAAGTGAATCGACCAAGTGACCCTTCAAGTATTTAGTCTAACACTCTCCTCTATGGATATTTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCT-T-T-GATATTTT
** * * * * *
60025788 TAAAATGTGATGAACGTGGGCCGAACACATGATCTTTAGATCTTCATTCTGATGCTCTCCCAA-T
63 TAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAACT
* * *
60025852 GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATTAATTCCATCGAATTT-C
128 GAGCTATCCTCGCAATTATAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCC
* *
60025916 C---C-T--TCCAACAACCCAAAATTCAAGTACATTAAATGACAACTAAGCTATGCATATTTTAA
193 CTTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAA
* * * * * * * * *
60025975 AAATGTTATTCCAACTACATTAAATGACAAGTGCGCTATGTATATTTTTAAAAAATAAAGGCTA
258 AATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATA-TTTT-AAAAAT----GTTG
* * * ** * *
60026039 TGAAAGCGGGTTGAAGACGTGACCCTTGAAGAATTTAGTCTAACACTCTCCATTTATCGATATTT
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCC--TT-T-GATATTT
* * * * * * * *
60026104 TTAAAATGCGATGAACTTGGATCAAACACGTGACCATTAGATCATCAATTTGATGCTC-TCCGAG
62 TTAAAATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCC-AA
* ** * * * * *
60026168 TTGAGCTATCCTTACAATTGTGATTAAAATTAATAATAATTAGATTGAGTATGAATTCCATCGAA
126 CTGAGCTATCCTCGCAATTATAAGT-AAA--AATAATAATTACATTGAGTATGAATTGCATCGAA
* * *
60026233 TTTCGCTTACTTGATCCAACAAC-CTAAAATTCATGTACATTAAATGATAACGAAGCTATGCATA
188 TTTCCCTTACTTGATCCAACAACAC-AAAATTCAAGTACATTAAATGATAACTAAGCTATGCATA
* * * * *
60026297 TTTTCAAAA-TGTTATTTCAACTACAATAAATGTAATGAAAATTGAGGTGTTGATATTTTAAGAA
252 TTTT-AAAATTGTTATTTCAACTAC-AT---T-AAATGAAAACTGAGGTATGGATATTTTAAAAA
60026361 TGTTG
311 TGTTG
* * ** ** * * * *
60026366 TCAAAGTGGATAGAAGACATGTCCCTTGAAGAATTTAGTATAACACTCTCCTTT-AT-GTTTTAA
1 TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTTGATATTTTTAA
* * * * * * * * *
60026429 AATGCGATGAACGTGGATCAAACACGTGAACTTCAAATTTTCAGTCTAACGCTC-TCCTAATTGA
66 AATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCC-AACTGA
* * *
60026493 GCTATCCTCGCAA-TAGTGAGTATAAATAATAATTACATTGAATATGAATTGCATCGAATTTCCC
130 GCTATCCTCGCAATTA-TAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCCC
* * * * * * * *
60026557 TTATTTGATCAAACAACCCAAAATTAAAGTTCATTAGATGATAATTAAGCTATGAATATTTTAAA
194 TTACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAAA
* *
60026622 ATTTTTATTTCAACTATATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
259 ATTGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
* * * * *
60026679 TAAAAGTGGATCTACGAGGTTGGTTGACCCTTCAAGTATTTAGTCTAACACACTCCTTTATGGAT
1 TGAAAGTGGATCGACCA----GG-TGACCCTTCAAGAATTTAGTCTAACACTCTCC-TT-T-GAT
*
60026744 ATTTTAAAAATGT
58 ATTTTTAAAATGT
60026757 TGTAAAAGTG
Statistics
Matches: 1121, Mismatches: 182, Indels: 99
0.80 0.13 0.07
Matches are distributed among these distances:
310 87 0.08
311 3 0.00
312 7 0.01
313 46 0.04
314 1 0.00
315 6 0.01
316 122 0.11
317 141 0.13
318 150 0.13
319 10 0.01
320 73 0.07
321 144 0.13
322 175 0.16
323 10 0.01
324 1 0.00
325 3 0.00
326 1 0.00
327 47 0.04
328 63 0.06
329 6 0.01
331 5 0.00
332 5 0.00
333 15 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (315 bp):
TGAAAGTGGATCGACCAGGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTTGATATTTTTAA
AATGTGATGAACGTGGATCGAACACGTGACCTTTAGATCTTCAATCTGACGCTCTTCCAACTGAG
CTATCCTCGCAATTATAAGTAAAAATAATAATTACATTGAGTATGAATTGCATCGAATTTCCCTT
ACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACTAAGCTATGCATATTTTAAAAT
TGTTATTTCAACTACATTAAATGAAAACTGAGGTATGGATATTTTAAAAATGTTG
Found at i:60026312 original size:638 final size:634
Alignment explanation
Indices: 60025085--60026673 Score: 1709
Period size: 638 Copynumber: 2.5 Consensus size: 634
60025075 AAAAAAGCTA
* * * *
60025085 TGAAAGTGGATCGAGGACGTGACCCTTCAAGAATTTTGTCTAACACCCTCCTTTATAGATATCTT
1 TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTCC-TTAT-GATAT-TT
* *
60025150 TT-AAATGTGATGAACGTGGATCGAACACGTGACCTTTTGATCTTCAATCTAACGCTCTCCCAAC
63 TTAAAATGTGATGAACGTGGATCGAACACGTGAACTTTAGATCTTCAATCTAACGCTCTCCCAAC
* * * ** *
60025214 TAAGCTGTACTCGCAACTGGGAA-TAAAAATAATAATTACATTGAGTATAAATTGCATCAAATTT
128 TGAGCTATCCTCGCAACT-ATAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTT
* * * *
60025278 CCCTTACTTGACCGAACAACAAAATTCAAGTTCAGTAAATGATAAATAAGCTATGAATATTTTAA
192 CCCTT-C--AAAC-AAC-CCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAA
* *
60025343 AAATTTTATTTCAACTACATTAAATGAACACTGAGGTATGGATATTTT-AAAAATGTTGTGAAAG
252 AAATTTTATTTCAACTACATTAAATGAA-ACTGAGGTATGGATATTTTAAAAAATGCTATGAAAG
** * * *
60025407 TTGATCGACCAGGTAACCCTTCAAGTATTTAGTCTAACACTCTCCTCTTCAGATATTTTTAAAAT
316 CGGATCGAACACGTAACCCTTCAAGAATTTAGTCTAACACTCTCCTCTTCAGATATTTTTAAAAT
* * * * * * * *
60025472 ATGATGAACATGGGTCGAATACTTGGACCTTTAGATCTTCAGTCTGACACTCTTCCAACTAAGCT
381 ACGATGAACATGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCCAACTAAGCT
* * * *
60025537 ATCCTCGCAATTATAAGTAAAAATGATAATAATTATATTGAGTATGAATTGCATCGAATTTCCCT
446 ATCCTCACAATTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCCCT
* * *
60025602 TACTTGATCCAACAACACAAAATTCAAGTGCATTAAATGATAACTAAGCTGTGCATATTTTAAAA
511 TACTTGATCCAACAACACAAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATTTTAAAA
60025667 TTGTTATTTCAACTAC-AT-T-CAATGAAAACCGAGGTATGGATATTCTAAAAATATAG
576 TTGTTATTTCAACTACAATATGCAATGAAAACCGAGGTATGGATATTCTAAAAATATAG
* ** *
60025723 TGAAAGTGAATCGACCAAGTGACCCTTCAAGTATTTAGTCTAACACTCTCCTCTATGGATATTTT
1 TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTCCT-TAT-GATATTTT
** * * * * *
60025788 TAAAATGTGATGAACGTGGGCCGAACACATGATCTTTAGATCTTCATTCTGATGCTCTCCCAA-T
64 TAAAATGTGATGAACGTGGATCGAACACGTGAACTTTAGATCTTCAATCTAACGCTCTCCCAACT
* *
60025852 GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATTAATTCCATCGAATTTCC
129 GAGCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTTCC
* * * * * *
60025917 CTTCCAACAACCCAAAATTCAAGTACATTAAATGACAACTAAGCTATGCATATTTTAAAAATGTT
194 CTTCAAACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAAAAATTTT
* * * * *
60025982 ATTCCAACTACATTAAATGACAAGTGCGCTATGTATATTTTTAAAAAATAAAGGCTATGAAAGCG
259 ATTTCAACTACATTAAATGA-AACTGAGGTATGGATA-TTTTAAAAAAT----GCTATGAAAGCG
* * * * * *
60026047 GGTTGAAGACGTGACCCTTGAAGAATTTAGTCTAACACTCTCCATTTATC-GATATTTTTAAAAT
318 GATCGAACACGTAACCCTTCAAGAATTTAGTCTAACACTCTCC-TCT-TCAGATATTTTTAAAAT
* * * ** ** *
60026111 GCGATGAACTTGGATCAAACACGT-GACCATTAGATCATCAATTTGATGCTC-TCCGAGTTGAGC
381 ACGATGAACATGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCC-AACTAAGC
* * * * * *
60026174 TATCCTTACAATTGTGATTAAAATTAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCGC
445 TATCCTCACAATTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCCC
*
60026239 TTACTTGATCCAACAAC-CTAAAATTCATGTACATTAAATGATAACGAAGCTATGCATATTTTCA
510 TTACTTGATCCAACAACAC-AAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATTTT-A
* ** * * * * * *
60026303 AAA-TGTTATTTCAACTACAATAAATGTAATGAAAATTGAGGTGTTGATATTTTAAGAATGTTG
573 AAATTGTTATTTCAACTACAAT--ATGCAATGAAAACCGAGGTATGGATATTCTAAAAATATAG
* * * * * *
60026366 TCAAAGTGGATAGAAGACA-TGTCCCTTGAAGAATTTAGTATAACACTCTCCTT-T-AT-GTTTT
1 TGAAAGTGGATCGAAGA-AGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTATGATATTTTT
* * * * * * * *
60026427 AAAATGCGATGAACGTGGATCAAACACGTGAACTTCAAATTTTCAGTCTAACGCTCTCCTAATTG
65 AAAATGTGATGAACGTGGATCGAACACGTGAACTTTAGATCTTCAATCTAACGCTCTCCCAACTG
* * * *
60026492 AGCTATCCTCGCAA-TAGTGAGTATAAATAATAATTACATTGAATATGAATTGCATCGAATTTCC
130 AGCTATCCTCGCAACTA-TAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTTCC
* * *
60026556 CTTATTTGATCAAACAACCCAAAATTAAAGTTCATTAGATGATAATTAAGCTATGAATATTTTAA
194 C-----T--TCAAACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAA
* *
60026621 AATTTTTATTTCAACTATATTAAATGAAAACTGAGGTATGGATATTTTAAAAA
252 AAATTTTATTTCAACTACATTAAATG-AAACTGAGGTATGGATATTTTAAAAA
60026674 TGTTGTAAAA
Statistics
Matches: 787, Mismatches: 133, Indels: 55
0.81 0.14 0.06
Matches are distributed among these distances:
632 77 0.10
633 8 0.01
634 8 0.01
636 3 0.00
637 67 0.09
638 355 0.45
639 100 0.13
640 2 0.00
641 1 0.00
642 2 0.00
643 69 0.09
644 2 0.00
645 9 0.01
646 83 0.11
647 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (634 bp):
TGAAAGTGGATCGAAGAAGTGACCCTTCAAGAATTTAGTCTAACACTCTCCTTATGATATTTTTA
AAATGTGATGAACGTGGATCGAACACGTGAACTTTAGATCTTCAATCTAACGCTCTCCCAACTGA
GCTATCCTCGCAACTATAAGTAAAAATAATAATTACATTGAGTATAAATTGCATCGAATTTCCCT
TCAAACAACCCAAAATTCAAGTTCATTAAATGATAAATAAGCTATGAATATTTTAAAAATTTTAT
TTCAACTACATTAAATGAAACTGAGGTATGGATATTTTAAAAAATGCTATGAAAGCGGATCGAAC
ACGTAACCCTTCAAGAATTTAGTCTAACACTCTCCTCTTCAGATATTTTTAAAATACGATGAACA
TGGATCAAACACGTGGACCATTAGATCATCAATCTGACACTCTTCCAACTAAGCTATCCTCACAA
TTATAAGTAAAAATAATAATAATTAGATTGAGTATGAATTCCATCGAATTTCCCTTACTTGATCC
AACAACACAAAATTCAAGTACATTAAATGATAACGAAGCTATGCATATTTTAAAATTGTTATTTC
AACTACAATATGCAATGAAAACCGAGGTATGGATATTCTAAAAATATAG
Found at i:60046121 original size:30 final size:30
Alignment explanation
Indices: 60046087--60046144 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60046077 AATTTAATGG
* *
60046087 TAAAAT-TATATTTTGACCTCTTTAAAAATT
1 TAAAATCTA-ATTATGACCTCTCTAAAAATT
*
60046117 TAAAATCTAATTATGCCCTCTCTAAAAA
1 TAAAATCTAATTATGACCTCTCTAAAAA
60046145 CAAAAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAAATCTAATTATGACCTCTCTAAAAATT
Found at i:60046737 original size:5 final size:5
Alignment explanation
Indices: 60046727--60046753 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
60046717 TTCTCATATA
60046727 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
60046754 TTTCATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:60049851 original size:14 final size:14
Alignment explanation
Indices: 60049832--60049861 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60049822 GAAACAGCAA
60049832 AATTTAACTTAATG
1 AATTTAACTTAATG
60049846 AATTTAACTTAATG
1 AATTTAACTTAATG
60049860 AA
1 AA
60049862 AAGTACAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTTAACTTAATG
Found at i:60056875 original size:256 final size:256
Alignment explanation
Indices: 60056420--60056933 Score: 857
Period size: 256 Copynumber: 2.0 Consensus size: 256
60056410 TATCCATCCA
* * *
60056420 CACAATGCCAATGGCAGGATATCATTAATTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
1 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
* * *
60056485 AAGTCATGCCATACACAAGTCCTGTACCCAACATACCAGCTATGGGCCCGATCATCTTTAGAGCA
66 AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
* * * * *
60056550 TAAGCCTCCACTTATATCAAAGCACATGATTTGTATACGCATAGTCAGTGGCTAACTCATGATTT
131 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
60056615 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
196 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
60056676 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
1 CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
* * * *
60056741 AAGTCATGCCATACACAAGTCATGTACACAACATATCGGCTATGGGCTCGATCGTCTTTAAAGCA
66 AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
* *
60056806 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATGGTCAGTGACTAACTTAGGATTT
131 TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
* *
60056871 AGGTAAATCAGACCATGAATGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
196 AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
60056932 CA
1 CA
60056934 TTTTGGGTCC
Statistics
Matches: 239, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
256 239 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (256 bp):
CACAATGCCAATGACAAGATATCATTAACTTTTTAATTGAGCTATGAATTCCACTGTTGCTAGTA
AAGTCATGCCATACACAAGTCATGTACACAACATACCAGCTATGGGCCCGATCATCTTTAAAGCA
TAAGCCTCCAATTATACCAAAGCACATGATTTGCATACGCATAGTCAGTGACTAACTCAGGATTT
AGGTAAATCAAACCATGAACGTCACAAGTGAATTAATTCACAAACGGATTCAGAATTAATT
Found at i:60058149 original size:39 final size:39
Alignment explanation
Indices: 60058095--60058185 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
60058085 TTCCCCCATT
* *
60058095 TAAATATAAAATATACCCTGAACCTTAAAC-CATAAACCC
1 TAAATACAAAATATACCCTGAACCCTAAACTC-TAAACCC
*
60058134 TAAATACAAAATATACCTTGAACCCTAAACTCTAAACCC
1 TAAATACAAAATATACCCTGAACCCTAAACTCTAAACCC
60058173 TAAATACAAAATA
1 TAAATACAAAATA
60058186 CACCGTACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 47 0.98
40 1 0.02
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.23
Consensus pattern (39 bp):
TAAATACAAAATATACCCTGAACCCTAAACTCTAAACCC
Found at i:60058530 original size:21 final size:21
Alignment explanation
Indices: 60058497--60058572 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
60058487 GGGTTTGCTG
* *
60058497 GAAAGGAAAAAAAATGAAAAA
1 GAAAAGAAAAAAAAGGAAAAA
* *
60058518 GAAAAGAAGAAAAAGGGAAAA
1 GAAAAGAAAAAAAAGGAAAAA
* * * *
60058539 GAGAGGGAAAATAAGGAAAATA
1 GAAAAGAAAAAAAAGGAAAA-A
60058561 TGAAAAAGAAAA
1 -G-AAAAGAAAA
60058573 TAAATATTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
21 31 0.79
22 1 0.03
23 1 0.03
24 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (21 bp):
GAAAAGAAAAAAAAGGAAAAA
Found at i:60058863 original size:9 final size:9
Alignment explanation
Indices: 60058849--60058917 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
60058839 ATGAATAAAA
60058849 ATAAAATTT
1 ATAAAATTT
*
60058858 ATAAAAATT
1 ATAAAATTT
**
60058867 A-AAAAAAT
1 ATAAAATTT
*
60058875 ATGAAAATTG
1 AT-AAAATTT
*
60058885 ATATAAA-CT
1 ATA-AAATTT
60058894 ATAAAATTT
1 ATAAAATTT
*
60058903 ATAAAATTA
1 ATAAAATTT
60058912 ATAAAA
1 ATAAAA
60058918 CATATTTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 10 0.21
9 28 0.60
10 9 0.19
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAATTT
Found at i:60058925 original size:22 final size:22
Alignment explanation
Indices: 60058899--60058949 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
60058889 AAACTATAAA
60058899 ATTTATAAAATTAAT-AAAACAT
1 ATTTA-AAAATTAATAAAAACAT
* *
60058921 ATTTAAAATTTTATAAAAACAT
1 ATTTAAAAATTAATAAAAACAT
60058943 A-TTAAAA
1 ATTTAAAA
60058950 TTCTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAAAAATTAATAAAAACAT
Found at i:60058938 original size:21 final size:21
Alignment explanation
Indices: 60058904--60058974 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
60058894 ATAAAATTTA
60058904 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATA-T
*
60058924 TAAAATTTTATAAAAACATAT
1 TAAAATTTAATAAAAACATAT
*
60058945 TAAAATTCTAAAAAAAATCATA-
1 TAAAATT-TAATAAAAA-CATAT
*
60058967 AAAAATTT
1 TAAAATTT
60058975 GTAAAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.12
21 13 0.30
22 21 0.49
23 4 0.09
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAATTTAATAAAAACATAT
Found at i:60058980 original size:9 final size:10
Alignment explanation
Indices: 60058851--60058990 Score: 69
Period size: 10 Copynumber: 14.3 Consensus size: 10
60058841 GAATAAAAAT
60058851 AAAATTTATA
1 AAAATTTATA
60058861 AAAA-TTA-A
1 AAAATTTATA
* *
60058869 AAAA-ATATG
1 AAAATTTATA
*
60058878 AAAATTGATA
1 AAAATTTATA
* *
60058888 TAAA-CTAT-
1 AAAATTTATA
60058896 AAAATTTAT-
1 AAAATTTATA
*
60058905 AAAATTAATA
1 AAAATTTATA
60058915 AAACATATT-TA
1 AAA-AT-TTATA
*
60058926 AAATTTTATA
1 AAAATTTATA
** *
60058936 AAAACATATT
1 AAAATTTATA
*
60058946 AAAATTCTAAA
1 AAAATT-TATA
* *
60058957 AAAAATCATAA
1 AAAATTTAT-A
*
60058968 AAAATTTGTA
1 AAAATTTATA
60058978 AAAATTTATA
1 AAAATTTATA
60058988 AAA
1 AAA
60058991 GTATTAAAAT
Statistics
Matches: 93, Mismatches: 28, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
8 10 0.11
9 22 0.24
10 39 0.42
11 21 0.23
12 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTATA
Found at i:60059027 original size:28 final size:27
Alignment explanation
Indices: 60058965--60059039 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
60058955 AAAAAAATCA
* *
60058965 TAAAAAATTTGTAAAAATTTATAAAAG
1 TAAAAAAATTGTAAAAACTTATAAAAG
** * *
60058992 TATTAAAATTGATATAAACTTATAAAAT
1 TAAAAAAATTG-TAAAAACTTATAAAAG
**
60059020 TAAAAAAATAATAAAAACTT
1 TAAAAAAATTGTAAAAACTT
60059040 GAACTTGATC
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
27 16 0.44
28 20 0.56
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
TAAAAAAATTGTAAAAACTTATAAAAG
Found at i:60059447 original size:9 final size:9
Alignment explanation
Indices: 60059435--60059681 Score: 73
Period size: 9 Copynumber: 26.6 Consensus size: 9
60059425 TTTTATGATT
60059435 TTTTTATAA
1 TTTTTATAA
60059444 TTTTTATAA
1 TTTTTATAA
* **
60059453 GCTTAAATCAA
1 -TTTTTAT-AA
*
60059464 TTTTAAT-A
1 TTTTTATAA
60059472 TTTTTATAGCA
1 TTTTTATA--A
*
60059483 TTTTTACAA
1 TTTTTATAA
*
60059492 TTTTTATTA
1 TTTTTATAA
60059501 TTTTTAATAA
1 TTTTT-ATAA
* *
60059511 TTCTAATACA
1 TTTTTATA-A
60059521 TTTTT-TAA
1 TTTTTATAA
*
60059529 ATTTTA-AA
1 TTTTTATAA
60059537 TATTTTAAATAA
1 T-TTTT--ATAA
* *
60059549 GTTCTATTAA
1 TTTTTA-TAA
60059559 -TTTTATAA
1 TTTTTATAA
60059567 -TTTTATAA
1 TTTTTATAA
* *
60059575 TATTTACAA
1 TTTTTATAA
*
60059584 GTTTGTATAA
1 -TTTTTATAA
60059594 TTTTTTTAAATAA
1 --TTTTT--ATAA
*
60059607 TTTTAATAA
1 TTTTTATAA
*
60059616 GTTTATATCAA
1 -TTTTTAT-AA
* **
60059627 TGTAAAT-A
1 TTTTTATAA
*
60059635 TTTTTAAAA
1 TTTTTATAA
60059644 TTTTTA-AA
1 TTTTTATAA
*
60059652 TATTTA-ACA
1 TTTTTATA-A
60059661 TTTTT-T-A
1 TTTTTATAA
60059668 TTTTTATAA
1 TTTTTATAA
60059677 TTTTT
1 TTTTT
60059682 TTTCTAATTT
Statistics
Matches: 176, Mismatches: 37, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
7 6 0.03
8 38 0.22
9 64 0.36
10 38 0.22
11 24 0.14
12 2 0.01
13 4 0.02
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTTTATAA
Found at i:60059523 original size:38 final size:37
Alignment explanation
Indices: 60059464--60059579 Score: 103
Period size: 38 Copynumber: 3.1 Consensus size: 37
60059454 CTTAAATCAA
* * *
60059464 TTTTAAT-ATTTTTATAGCATTTTTACAATTTTTATTAT
1 TTTTAATAATTCTAATA-CATTTTTA-AATTTTTAATAT
*
60059502 TTTTAATAATTCTAATACATTTTTTAAATTTTAAATAT
1 TTTTAATAATTCTAATACA-TTTTTAAATTTTTAATAT
* *
60059540 TTTAAATAAGTTCTATTA-A-TTTTATAATTTTATAATAT
1 TTTTAATAA-TTCTAATACATTTTTA-AATTTT-TAATAT
60059578 TT
1 TT
60059580 ACAAGTTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
36 5 0.08
37 6 0.09
38 35 0.53
39 20 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (37 bp):
TTTTAATAATTCTAATACATTTTTAAATTTTTAATAT
Found at i:60062925 original size:17 final size:18
Alignment explanation
Indices: 60062903--60062938 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
60062893 GAAAATAAAT
60062903 TATTAAAAAATA-AAAAA
1 TATTAAAAAATATAAAAA
*
60062920 TATTAAAAATTATAAAAA
1 TATTAAAAAATATAAAAA
60062938 T
1 T
60062939 TGGTTTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATTAAAAAATATAAAAA
Found at i:60070985 original size:19 final size:18
Alignment explanation
Indices: 60070954--60070996 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
60070944 GCAAAATTAT
*
60070954 AAAAAAAATAAAAGAATA
1 AAAAAAAACAAAAGAATA
**
60070972 AAAAAGAAACAAAATTATA
1 AAAAA-AAACAAAAGAATA
60070991 AAAAAA
1 AAAAAA
60070997 TTCTCGTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAAAACAAAAGAATA
Found at i:60070993 original size:17 final size:18
Alignment explanation
Indices: 60070945--60070996 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
60070935 AGATATTATG
60070945 CAAAATTATAAAAAAAAT
1 CAAAATTATAAAAAAAAT
** *
60070963 -AAAAGAATAAAAAAGAAA
1 CAAAATTATAAAAAA-AAT
60070981 CAAAATTATAAAAAAA
1 CAAAATTATAAAAAAA
60070997 TTCTCGTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 12 0.44
18 3 0.11
19 12 0.44
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (18 bp):
CAAAATTATAAAAAAAAT
Found at i:60072298 original size:55 final size:55
Alignment explanation
Indices: 60072202--60072317 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
60072192 GTTAATATAT
*
60072202 AATTTGGTACATAAATTTGGTTTCACTATTCAATTTAGTACTTGCA-TTTTTTCCC
1 AATTTGGTACATAAATTTGGTTTCAATATTCAATTTAGTACTTG-ATTTTTTTCCC
* * * * * *
60072257 AATTTGGTACATCAATTTGGCTTT-AATGTTTACTTTGGTACTTGATTTTTTTTCC
1 AATTTGGTACATAAATTTGG-TTTCAATATTCAATTTAGTACTTGATTTTTTTCCC
60072312 AATTTG
1 AATTTG
60072318 ATACTTGAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 1 0.02
55 48 0.92
56 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (55 bp):
AATTTGGTACATAAATTTGGTTTCAATATTCAATTTAGTACTTGATTTTTTTCCC
Found at i:60073282 original size:22 final size:23
Alignment explanation
Indices: 60073240--60073286 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
60073230 AATTTTTTAA
60073240 ATTTAAAAAAATAAAAAAATGTAT
1 ATTTAAAAAAAT-AAAAAATGTAT
*
60073264 ATTTATAAAAAT-AAAAATGTAT
1 ATTTAAAAAAATAAAAAATGTAT
60073286 A
1 A
60073287 AGATTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTTAAAAAAATAAAAAATGTAT
Found at i:60076930 original size:14 final size:14
Alignment explanation
Indices: 60076911--60076940 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60076901 TTTCTCCGGA
60076911 TTAAGAGTATGATT
1 TTAAGAGTATGATT
60076925 TTAAGAGTATGATT
1 TTAAGAGTATGATT
60076939 TT
1 TT
60076941 TTCAACTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TTAAGAGTATGATT
Found at i:60082731 original size:130 final size:130
Alignment explanation
Indices: 60082381--60082814 Score: 508
Period size: 131 Copynumber: 3.3 Consensus size: 130
60082371 ATTATCTGTT
* * * * * * *
60082381 ATGAACAATTTTTTTTGTGTTAGTTTATTTAATTTAGCAACTCCGAACAACTTGTTGATTTAAGA
1 ATGAACAATTTTATTT-AGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGA
* ** * * *
60082446 TCACAACTGATATTATCAAGGTTAGCTGATTTAAGATAAAAACCAAACTTTATTCGATTTAAGAT
65 TCACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGAT
*
60082511 A
130 C
* * ** * ** * *
60082512 ATGAACAATTTTGTTCAAGTTAATTAATTTAATATCGTTACTCTGAACAACTCGTTGATTTAACA
1 ATGAACAATTTTATT-TAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGA
* * *
60082577 TCACAACTGGTATTATTACGGTTAGCTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGAT
65 TCACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGAT
60082642 C
130 C
* * * *
60082643 ATGAACAATTTTATTTGGTTAGCTGATTTAATATTGCAACTCCAAACAGCTCGTTGATTTAAGAT
1 ATGAACAATTTTATTTAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGAT
* * * * *
60082708 CACAACTAATATTATTAATGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATC
66 CACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGATC
* *
60082773 ATGAATAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACT
1 ATGAACAATTTTATTT-AGTTAGCTGATTTAATATCGCAACT
60082815 GATATTATCA
Statistics
Matches: 255, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
130 111 0.44
131 144 0.56
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (130 bp):
ATGAACAATTTTATTTAGTTAGCTGATTTAATATCGCAACTCCGAACAACTCGTTGATTTAAGAT
CACAACTGATATTATTAAGGTTAGCTGATTTAAGATAGCAACCTAAGTTCATTCGATTTAAGATC
Found at i:60082787 original size:64 final size:64
Alignment explanation
Indices: 60082597--60082813 Score: 237
Period size: 64 Copynumber: 3.4 Consensus size: 64
60082587 TATTATTACG
* * *
60082597 GTTAGCTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTATT--T
1 GTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAATAATTTTATTAAT
* * * * * * *
60082659 GGTTAGCTGATTTAATATTGCAACTCCAAACAGCTC-GTTGATTTAAGATCA-CAACTAATATTA
1 -GTTAGCTGATTTAAGATCGCAA--CC-TA-AGTTCATTTGATTTAAGATCATGAA-TAATTTTA
60082722 TTAAT
60 TTAAT
*
60082727 GTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAATAATTTTATTTAA-
1 GTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAATAATTTTA-TTAAT
60082791 GTTAGCTGATTTAAGATCGCAAC
1 GTTAGCTGATTTAAGATCGCAAC
60082814 TGATATTATC
Statistics
Matches: 127, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
63 25 0.20
64 44 0.35
65 12 0.09
66 22 0.17
67 23 0.18
68 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (64 bp):
GTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAATAATTTTATTAAT
Found at i:60090556 original size:10 final size:10
Alignment explanation
Indices: 60090541--60090574 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60090531 AAGTTTTAGA
*
60090541 TTTAATCTTT
1 TTTAATTTTT
60090551 TTTAATTTTT
1 TTTAATTTTT
*
60090561 TTTAGTTTTT
1 TTTAATTTTT
60090571 TTTA
1 TTTA
60090575 GTTTCTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:60090575 original size:10 final size:10
Alignment explanation
Indices: 60090548--60090578 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
60090538 AGATTTAATC
*
60090548 TTTTTTAATT
1 TTTTTTAGTT
60090558 TTTTTTAGTT
1 TTTTTTAGTT
60090568 TTTTTTAGTT
1 TTTTTTAGTT
60090578 T
1 T
60090579 CTCAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTTTTAGTT
Found at i:60091111 original size:27 final size:28
Alignment explanation
Indices: 60091081--60091137 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
60091071 ACTCATTTTT
*
60091081 TTATATTTAAATA-TCTTTTTTGAAGAA
1 TTATATTTAAATATTCTTTTTTGAAAAA
* *
60091108 TTATGTTTAAATATTTTTTTTTGAAAAA
1 TTATATTTAAATATTCTTTTTTGAAAAA
60091136 TT
1 TT
60091138 TGAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (28 bp):
TTATATTTAAATATTCTTTTTTGAAAAA
Done.