Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 255 of 343
Found at i:84338320 original size:45 final size:45
Alignment explanation
Indices: 84338261--84338376 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
84338251 TGCCATGGTA
* * *
84338261 TCTTTCAACCATGGTCTTACACATTTGAATCGCGATGCCATAACG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCCATAACG
* * * **
84338306 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGTG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCCATAACG
84338351 TCTTTCAGCTATGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
84338377 CTGGTATGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCCATAACG
Found at i:84338387 original size:45 final size:45
Alignment explanation
Indices: 84338062--84338394 Score: 212
Period size: 46 Copynumber: 7.3 Consensus size: 45
84338052 TATCTTCGAC
* *
84338062 ATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TCGGT
1 ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCT-GGT
* * * * * **
84338107 CAGGCTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGT
1 -ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTT-CTGGT
* * *
84338154 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-GT
1 -ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTC-TGGT
* * * * **
84338200 CTCGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATT
1 AT-GATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTC-TGGT
* * * *
84338247 ATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TT-T-GA
1 ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTGGT
*** * * * *
84338289 ATCGCGATGCCATAACGTCTTTCAGCTATGGTCTTACTC--GTCTGAAT
1 AT---GATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTG-GT
* * * *
84338336 CGTGATGCCATAGTGTCTTTCAGCTATGGTCTTACTCATTTCTGGT
1 -ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTGGT
84338382 ATGATGCCATAGT
1 ATGATGCCATAGT
84338395 CCAACTATGG
Statistics
Matches: 236, Mismatches: 37, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 1 0.00
45 74 0.31
46 111 0.47
47 46 0.19
48 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (45 bp):
ATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTGGT
Found at i:84341325 original size:31 final size:33
Alignment explanation
Indices: 84341265--84341326 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
84341255 ATATATATAG
*
84341265 ATTAAATAAAATAATAAAATATCTTATTAAAAT
1 ATTAAATAAAATAATAAAATATCTAATTAAAAT
*
84341298 ATTAAAT-AAATAAT-AATTATCTAATTAAA
1 ATTAAATAAAATAATAAAATATCTAATTAAA
84341327 TAACTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 13 0.48
32 7 0.26
33 7 0.26
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (33 bp):
ATTAAATAAAATAATAAAATATCTAATTAAAAT
Found at i:84341596 original size:29 final size:30
Alignment explanation
Indices: 84341539--84341606 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
84341529 CACCCTTAAA
* * * * *
84341539 ATATTTGCACTATTAGTCCTTCAACTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTG
84341569 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTG
84341598 AGTATTTAC
1 A-TATTTAC
84341607 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTG
Found at i:84342384 original size:16 final size:17
Alignment explanation
Indices: 84342365--84342402 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
84342355 GACAAGTCTT
84342365 TAAAATAAA-C-ATAAAA
1 TAAAATAAAGCGA-AAAA
84342381 TAAAATAAAGCGAAAAA
1 TAAAATAAAGCGAAAAA
84342398 TAAAA
1 TAAAA
84342403 GATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 10 0.50
18 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (17 bp):
TAAAATAAAGCGAAAAA
Found at i:84344287 original size:20 final size:19
Alignment explanation
Indices: 84344255--84344295 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
84344245 AAGGGGGAGA
*
84344255 AAAGGGGAAAGGGAAAAAG
1 AAAGGGAAAAGGGAAAAAG
*
84344274 AAAGGGAAAGAGGGAGAAAG
1 AAAGGGAAA-AGGGAAAAAG
84344294 AA
1 AA
84344296 GGGGTGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (19 bp):
AAAGGGAAAAGGGAAAAAG
Found at i:84350242 original size:13 final size:13
Alignment explanation
Indices: 84350224--84350248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84350214 AACGAAGACA
84350224 GACACGGCCGTGC
1 GACACGGCCGTGC
84350237 GACACGGCCGTG
1 GACACGGCCGTG
84350249 TTCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:84350712 original size:23 final size:23
Alignment explanation
Indices: 84350686--84350732 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
84350676 CATTCTATTA
*
84350686 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
84350709 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
84350732 T
1 T
84350733 TATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:84362958 original size:93 final size:93
Alignment explanation
Indices: 84362846--84363018 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
84362836 CGCCCATAAG
* *
84362846 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
84362911 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
84362939 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
84363004 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
84363019 AAACATCCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:84363014 original size:46 final size:46
Alignment explanation
Indices: 84362839--84363014 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
84362829 TGTAACCCGC
* * *
84362839 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84362885 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
84362931 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84362978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84363015 TGCCAAACAT
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84365325 original size:30 final size:30
Alignment explanation
Indices: 84365281--84365349 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
84365271 CAAAGATAAC
*
84365281 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
84365310 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
84365340 AAGAAACCCA
1 AAGAAACCCA
84365350 AGATATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Found at i:84365329 original size:15 final size:15
Alignment explanation
Indices: 84365281--84365349 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
84365271 CAAAGATAAC
*
84365281 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
84365295 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
84365310 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
84365325 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
84365340 AAGAAACCCA
1 AAGAAACCCA
84365350 AGATATGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 9 0.20
15 36 0.78
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:84368422 original size:93 final size:93
Alignment explanation
Indices: 84368307--84368479 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
84368297 CGCCCATAAG
* *
84368307 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
84368372 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
84368400 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
84368465 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
84368480 CAAACATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:84368475 original size:46 final size:46
Alignment explanation
Indices: 84368300--84368475 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
84368290 TGTAACCCGC
* * *
84368300 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
84368346 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
84368392 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84368439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84368476 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.62
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84368494 original size:46 final size:46
Alignment explanation
Indices: 84368308--84368494 Score: 143
Period size: 46 Copynumber: 4.0 Consensus size: 46
84368298 GCCCATAAGC
* * * * * *
84368308 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA--CAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGT
* * *
84368354 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGT
* * * *
84368401 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGT
*
84368447 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
84368493 GA
1 GA
84368495 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 22
0.73 0.12 0.14
Matches are distributed among these distances:
44 11 0.10
45 2 0.02
46 62 0.56
47 31 0.28
49 5 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
Found at i:84371726 original size:21 final size:21
Alignment explanation
Indices: 84371702--84371742 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84371692 CATTTACCAG
*
84371702 AATTAAACCTGCTCAAAACAA
1 AATTAAACCAGCTCAAAACAA
*
84371723 AATTAAACCAGCTCGAAACA
1 AATTAAACCAGCTCAAAACA
84371743 TGCCAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.17
Consensus pattern (21 bp):
AATTAAACCAGCTCAAAACAA
Found at i:84373201 original size:16 final size:18
Alignment explanation
Indices: 84373176--84373210 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
84373166 AAGATGATGG
84373176 TTTTATTTAA-TTTTTGT
1 TTTTATTTAAGTTTTTGT
84373193 TTTTA-TTAAGTTTTTGT
1 TTTTATTTAAGTTTTTGT
84373210 T
1 T
84373211 AATTAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTTATTTAAGTTTTTGT
Found at i:84377019 original size:27 final size:27
Alignment explanation
Indices: 84376989--84377061 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
84376979 TTAGAAATCA
*
84376989 CCACAAAGATTATTCTTTCATAA-TCTG
1 CCACAAAGGTTATTCTTTCATAACTC-G
* *
84377016 CCACAATGGTTGTTCTTTCATAACTCG
1 CCACAAAGGTTATTCTTTCATAACTCG
* *
84377043 CCACGAAGGCTATTCTTTC
1 CCACAAAGGTTATTCTTTC
84377062 CTATCATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
CCACAAAGGTTATTCTTTCATAACTCG
Found at i:84380585 original size:50 final size:50
Alignment explanation
Indices: 84380432--84380655 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 50
84380422 TTTGCGTGGC
* *
84380432 CAGTGTAAGA-CATGTCTGGGATAT-GCATCGGC-CTCGAGA-TGT-A-AGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-G-GATTGTGAGAGT
*
84380478 CAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-CTCGAGA-TGT----GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-G-GATTGTGAGAGT
*
84380522 CAGTGTAAGACCATGTCTGAGACATGGCATCGGCAC-GGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGAT-TGTGAGAGT
* * * * *
84380571 CTAGTGTAAGACCATGTCAGGGACATGGCGTCGGC-CTTGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATTGTGAGAGT
*
84380621 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
84380656 TTATACCCTA
Statistics
Matches: 151, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
44 13 0.09
45 13 0.09
46 51 0.34
47 1 0.01
49 38 0.25
50 35 0.23
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATTGTGAGAGT
Found at i:84383948 original size:46 final size:46
Alignment explanation
Indices: 84383895--84384111 Score: 235
Period size: 46 Copynumber: 4.6 Consensus size: 46
84383885 GTTACCAGTA
84383895 TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCTAGTG
* * * *
84383941 TAAGACATGTCTGAGACATGCATCGACCTCGAGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCTAGTG
* * * *
84383987 TAAAACATGTCTAGGACATGCATCGGCTTCGAGATGT--G-TCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCT-AGTG
* * *
84384031 TAAGACCATGTCTCGGACATGGCATCGG-CACAGATATGTGAGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-AGATGT-A-AGCTAGTG
84384081 TAAGACCATGTCTGGGACATGGCATCGGCCT
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCT
84384112 TGATTTTGAT
Statistics
Matches: 143, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
44 9 0.06
45 14 0.10
46 86 0.60
50 32 0.22
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCTAGTG
Found at i:84384056 original size:92 final size:93
Alignment explanation
Indices: 84383889--84384158 Score: 257
Period size: 92 Copynumber: 2.8 Consensus size: 93
84383879 ATTTGTGTTA
* * * *
84383889 CCAGTATAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAG-CTAGTGTAAGA-CATGTC
1 CCAGTGTAAAACATGTCTGGGACATGCATCGGCTTCGAGATGT-AGTC-AGTGTAAGACCATGTC
*
84383952 TGAGACATGCATCGAC-CTCGAGATGT-A-AG
64 TG-GACATGCATCGACAC-AGAGATGTGAGAG
*
84383981 CCAGTGTAAAACATGTCTAGGACATGCATCGGCTTCGAGATGT-GTCAGTGTAAGACCATGTCTC
1 CCAGTGTAAAACATGTCTGGGACATGCATCGGCTTCGAGATGTAGTCAGTGTAAGACCATGTCT-
* *
84384045 GGACATGGCATCGGCACAGATATGTGAGAG
65 GGACAT-GCATCGACACAGAGATGTGAGAG
* * **
84384075 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT-GATTTTGATAGTCAGTGTAAGACCAT
1 CCAGTGTAA-AACATGTCTGGGACAT-GCATCGG-CTTCGA-GATG-TAGTCAGTGTAAGACCAT
*
84384139 GTCTGGGACATAACATCGAC
61 GTCT-GGACAT-GCATCGAC
84384159 TTGATGGATG
Statistics
Matches: 148, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
90 10 0.07
91 13 0.09
92 52 0.35
93 2 0.01
94 10 0.07
95 14 0.09
96 9 0.06
97 5 0.03
98 1 0.01
99 32 0.22
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (93 bp):
CCAGTGTAAAACATGTCTGGGACATGCATCGGCTTCGAGATGTAGTCAGTGTAAGACCATGTCTG
GACATGCATCGACACAGAGATGTGAGAG
Found at i:84384089 original size:50 final size:50
Alignment explanation
Indices: 84384027--84384206 Score: 212
Period size: 49 Copynumber: 3.7 Consensus size: 50
84384017 GAGATGTGTC
* *
84384027 AGTGTAAGACCATGTCTCGGACATGGCATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGAT-TGTGAGAGCT
* *
84384077 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGATTTTGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATTGTGAGAGCT
** *
84384125 CAGTGTAAGACCATGTCTGGGACATAACATC-G-ACTTGATGGATGAG-GC-
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATTG-TGAGAGCT
*
84384173 AGTGTAAGACCATGTCTGGGACATGGTATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
84384207 TTATACCCTA
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
47 27 0.24
48 10 0.09
49 39 0.35
50 35 0.32
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATTGTGAGAGCT
Found at i:84384194 original size:47 final size:48
Alignment explanation
Indices: 84384026--84384196 Score: 170
Period size: 50 Copynumber: 3.5 Consensus size: 48
84384016 CGAGATGTGT
* ** * *
84384026 CAGTGTAAGACCATGTCTCGGACATGGCATCGGCAC-AGATATGTGAGA-G
1 CAGTGTAAGACCATGTCTGGGACATAACATCGG-ACTTGAT-TG-GATAGG
** * * *
84384075 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATAACATCGGACTTGA-TTGGATAGG
84384125 CAGTGTAAGACCATGTCTGGGACATAACATC-GACTTGA-TGGATGAGG
1 CAGTGTAAGACCATGTCTGGGACATAACATCGGACTTGATTGGAT-AGG
84384172 CAGTGTAAGACCATGTCTGGGACAT
1 CAGTGTAAGACCATGTCTGGGACAT
84384197 GGTATCGGCA
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
46 4 0.04
47 27 0.25
48 6 0.06
49 33 0.31
50 35 0.33
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATAACATCGGACTTGATTGGATAGG
Found at i:84384195 original size:96 final size:99
Alignment explanation
Indices: 84384024--84384205 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 99
84384014 TTCGAGATGT
** *
84384024 GTCAGTGTAAGACCATGTCTCGGACATGGCATCGGCACAGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTCGGACATAACATCGGCACAGATAGGTGAGAGCTAGTGTAAGACCA
84384089 TGTCTGGGACATGGCATCGGCCTTGATTTTGATA
66 TGTCTGGGACATGGCATCGGCCTTGATTTTGATA
* *
84384123 GTCAGTGTAAGACCATGTCTGGGACATAACATC-G-ACTTGAT-GGATGAG-GC-AGTGTAAGAC
1 GTCAGTGTAAGACCATGTCTCGGACATAACATCGGCAC-AGATAGG-TGAGAGCTAGTGTAAGAC
*
84384183 CATGTCTGGGACATGGTATCGGC
64 CATGTCTGGGACATGGCATCGGC
84384206 ATTATACCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
96 32 0.43
97 5 0.07
98 8 0.11
99 30 0.40
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (99 bp):
GTCAGTGTAAGACCATGTCTCGGACATAACATCGGCACAGATAGGTGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCCTTGATTTTGATA
Found at i:84387424 original size:47 final size:47
Alignment explanation
Indices: 84387371--84387493 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
84387361 ACCCATAAGT
*
84387371 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
* *
84387418 GAACTCGGACTCAACTCAACGAGCGCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
* *
84387465 GAACTCAGACTCAACTCAACGAGTTCAGA
1 GAACTCGGACTCAACTCAACGAGCTCAGA
84387494 CATTCGCATC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:84393821 original size:49 final size:50
Alignment explanation
Indices: 84393764--84393861 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
84393754 TTTAATATGT
* *
84393764 TTAGTTTAATTAATTCAGTTGTTTT-AATTTTCCTTAATTGCTTAAATAC
1 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATAC
* *
84393813 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCTTTAGTTGCTTAAATA
1 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATA
84393862 ATTCCGGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (50 bp):
TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATAC
Found at i:84396317 original size:12 final size:12
Alignment explanation
Indices: 84396300--84396331 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
84396290 CGACCCGCCC
84396300 ATATTAATTTTT
1 ATATTAATTTTT
84396312 ATATT-ATTTTT
1 ATATTAATTTTT
84396323 ATA-TAATTT
1 ATATTAATTT
84396332 AATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:84396490 original size:30 final size:30
Alignment explanation
Indices: 84396454--84396516 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
84396444 ACTTAACAAT
84396454 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
84396484 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
84396514 CAA
1 CAA
84396517 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:84397451 original size:20 final size:21
Alignment explanation
Indices: 84397398--84397452 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
84397388 TTGGGGGTCA
84397398 ACATACCCATGTGAAGAAGGCAC
1 ACAT-CCC-TGTGAAGAAGGCAC
*
84397421 ACATCCGTGTGAAGAA-GCAC
1 ACATCCCTGTGAAGAAGGCAC
84397441 AC-TCTCCTGTGA
1 ACATC-CCTGTGA
84397453 GGGGAGGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 9 0.31
22 2 0.07
23 4 0.14
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (21 bp):
ACATCCCTGTGAAGAAGGCAC
Found at i:84404365 original size:29 final size:27
Alignment explanation
Indices: 84404322--84404383 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
84404312 GTTCATATCG
*
84404322 ATTTGGCTTCAGGCCATGCATATCAGCTA
1 ATTTGGCTTCAGGCCACG-ATATCAG-TA
**
84404351 ATTTGGCTTTGGGCCACGATATCAGTA
1 ATTTGGCTTCAGGCCACGATATCAGTA
*
84404378 CTTTGG
1 ATTTGG
84404384 AGATAAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (27 bp):
ATTTGGCTTCAGGCCACGATATCAGTA
Found at i:84414256 original size:43 final size:42
Alignment explanation
Indices: 84414191--84414320 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
84414181 AGCTCGCACA
* * *
84414191 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGAAATGGTCTTACATGTAATCACATATCG
* * * *
84414233 ATGCCACTGTCCCAGAAAAGGTCTTACACGAAATCATA-ATACG
1 ATGCCA-TGTCCCAGAAATGGTCTTACATGTAATCACATAT-CG
* *
84414276 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCC-ATGTCCCAGAAATGGTCTTACATGTAATCACATATCG
84414319 AT
1 AT
84414321 AACCTAATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.11
43 61 0.86
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGAAATGGTCTTACATGTAATCACATATCG
Found at i:84416071 original size:21 final size:20
Alignment explanation
Indices: 84416045--84416087 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
84416035 GGAATTTGAA
84416045 TTGAGT-AGTTGAGGGAGTGGT
1 TTGAGTGAGTTGA-GGAG-GGT
*
84416066 TTGAGTGATTTGAGGAGGGT
1 TTGAGTGAGTTGAGGAGGGT
84416086 TT
1 TT
84416088 TTAGGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (20 bp):
TTGAGTGAGTTGAGGAGGGT
Found at i:84417595 original size:27 final size:27
Alignment explanation
Indices: 84417557--84417749 Score: 242
Period size: 27 Copynumber: 7.1 Consensus size: 27
84417547 CGTACCTGAA
*
84417557 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
* *
84417584 CCCTCATATGATAAAATTACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
84417611 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
84417638 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * **
84417665 CCCTCATGTGGTAAAATAAAAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * * *
84417692 CCATTATGTGGTAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
84417719 CCCTTATGTGATAAAATGAGGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
84417746 CCCT
1 CCCT
84417750 GATAGGGTAA
Statistics
Matches: 147, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:84417774 original size:27 final size:27
Alignment explanation
Indices: 84417744--84417819 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
84417734 ATGAGGATTT
84417744 TACCCTGATAGGGTAAAATGACCGAAA
1 TACCCTGATAGGGTAAAATGACCGAAA
* *
84417771 TACCCCT-ATAGGGTAAAATGACTGTAA
1 TA-CCCTGATAGGGTAAAATGACCGAAA
* * *
84417798 TACCCCGGTAAGGTAAAATGAC
1 TACCCTGATAGGGTAAAATGAC
84417820 AGATTTGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.07
27 35 0.83
28 4 0.10
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (27 bp):
TACCCTGATAGGGTAAAATGACCGAAA
Found at i:84418066 original size:17 final size:18
Alignment explanation
Indices: 84418044--84418077 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84418034 CACATTGAAG
84418044 TGTTTT-AACGAAAACCT
1 TGTTTTCAACGAAAACCT
*
84418061 TGTTTTCATCGAAAACC
1 TGTTTTCAACGAAAACC
84418078 CGTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTTTTCAACGAAAACCT
Found at i:84419258 original size:29 final size:29
Alignment explanation
Indices: 84419191--84419315 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
84419181 AAGTCTACAT
*
84419191 ACATCCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
84419219 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
84419248 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* **
84419277 ACATTCCTATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
84419306 ACATTCATAT
1 ACATTCATAT
84419316 ACATGCTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 22 0.25
29 66 0.75
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:84419549 original size:16 final size:16
Alignment explanation
Indices: 84419525--84419562 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
84419515 GTAGCCAAAC
84419525 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
84419541 TTTCGGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
84419557 TTTCAG
1 TTTCAG
84419563 GATTTGCCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:84423191 original size:10 final size:11
Alignment explanation
Indices: 84423152--84423193 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
84423142 TATTTACGAA
*
84423152 GTTAATTTAGTG
1 GTTAA-TTAGAG
84423164 GTTAATTAGAG
1 GTTAATTAGAG
*
84423175 TTTAATTA-AG
1 GTTAATTAGAG
84423185 GTTAATTAG
1 GTTAATTAG
84423194 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:84423663 original size:24 final size:23
Alignment explanation
Indices: 84423636--84423688 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
84423626 TATGTATTTG
84423636 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
84423660 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
84423681 TTATTAAA
1 TTATTAAA
84423689 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:84423850 original size:12 final size:13
Alignment explanation
Indices: 84423805--84423862 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
84423795 TTATGAATTA
84423805 AATATTATTATA-T
1 AATATTATTA-ACT
*
84423818 TATATTATTATA-T
1 AATATTATTA-ACT
84423831 AATGTATTATT-ACT
1 AA--TATTATTAACT
84423845 AATATTATTAACT
1 AATATTATTAACT
84423858 AATAT
1 AATAT
84423863 ATATATGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 22 0.56
14 3 0.08
15 7 0.18
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (13 bp):
AATATTATTAACT
Found at i:84423862 original size:13 final size:13
Alignment explanation
Indices: 84423805--84423854 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
84423795 TTATGAATTA
84423805 AATATTATTATAT
1 AATATTATTATAT
*
84423818 TATATTATTATAT
1 AATATTATTATAT
*
84423831 AATGTATTATTA-CT
1 AA--TATTATTATAT
84423845 AATATTATTA
1 AATATTATTA
84423855 ACTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 8 0.25
13 13 0.41
14 3 0.09
15 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (13 bp):
AATATTATTATAT
Found at i:84430478 original size:16 final size:16
Alignment explanation
Indices: 84430457--84430503 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
84430447 ATGAATTAAA
84430457 TATTATTATATTATAT
1 TATTATTATATTATAT
*
84430473 TATTATTATAATGA-AT
1 TATTATTAT-ATTATAT
84430489 TATTATTAATATTAT
1 TATTATT-ATATTAT
84430504 TAACTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:84430481 original size:19 final size:21
Alignment explanation
Indices: 84430455--84430505 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
84430445 TTATGAATTA
84430455 AATATTATTAT-ATTA-TATT
1 AATATTATTATAATTATTATT
* *
84430474 ATTATTATAATGAATTATTATT
1 AATATTATTAT-AATTATTATT
84430496 AATATTATTA
1 AATATTATTA
84430506 ACTAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 9 0.36
21 4 0.16
22 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATATTATTATAATTATTATT
Found at i:84430551 original size:9 final size:9
Alignment explanation
Indices: 84430537--84430570 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
84430527 AAAGTAAAAT
84430537 AACAAAAGA
1 AACAAAAGA
*
84430546 AACAAAAGG
1 AACAAAAGA
84430555 AA-AAAAGA
1 AACAAAAGA
84430563 AACAAAAG
1 AACAAAAG
84430571 CTTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (9 bp):
AACAAAAGA
Found at i:84432408 original size:50 final size:50
Alignment explanation
Indices: 84432282--84432523 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
84432272 AGCCGAAGCT
* * * * * *
84432282 ATCTGATACGCATAGTAGTCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
84432331 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * *
84432381 ATCTGATATACGTAGTAGCCTGCACTTAGTAATACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
** * * * *
84432432 AT-TGATTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
84432481 AGTATGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
84432524 TACTCACAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 40 0.26
50 77 0.49
51 39 0.25
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:84441467 original size:93 final size:93
Alignment explanation
Indices: 84441354--84441525 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
84441344 CGCCCATAAG
* *
84441354 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
84441419 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
84441447 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
84441512 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
84441526 TCAGCCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:84441522 original size:46 final size:46
Alignment explanation
Indices: 84441347--84441522 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
84441337 TGTAACCCGC
* * *
84441347 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
84441393 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
84441443 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
84441486 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
84441523 TGCTCAGCCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84448525 original size:91 final size:92
Alignment explanation
Indices: 84448414--84448582 Score: 281
Period size: 91 Copynumber: 1.8 Consensus size: 92
84448404 CCCCCATAAG
*
84448414 CGAACTCGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
84448477 ACGAG-TCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
*
84448504 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
84448569 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
84448583 TCAACCATCC
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
90 7 0.10
91 40 0.55
92 18 0.25
93 8 0.11
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:84448555 original size:46 final size:46
Alignment explanation
Indices: 84448407--84448579 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
84448397 ATGTAACCCC
* *
84448407 CCATAAGCGAACTCGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
84448452 CCATAAGTGAACTCGACTCAACTCAACGAG-TCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
84448500 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTC-GACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
84448543 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTC-GACTCAACTCAACGAGTTCGGA
84448580 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 39 0.36
46 47 0.44
47 7 0.06
48 3 0.03
49 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:84448598 original size:46 final size:43
Alignment explanation
Indices: 84448415--84448598 Score: 117
Period size: 46 Copynumber: 4.0 Consensus size: 43
84448405 CCCCATAAGC
* * * * *
84448415 GAACTCGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAT-AAGT
1 GAACTCGACTCAACTCAACGAGTTCG-G-ATGC-CAACCATCTAGT
*
84448460 GAACTCGACTCAACTCAACGAG-TCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
84448505 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTC-GACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
84448551 GAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTC-GACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
84448597 GA
1 GA
84448599 CATGTCACTT
Statistics
Matches: 110, Mismatches: 14, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 15 0.14
45 29 0.26
46 49 0.45
47 7 0.06
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
GAACTCGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:84459430 original size:43 final size:43
Alignment explanation
Indices: 84459365--84459488 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
84459355 AGCTCGAACA
* * * *
84459365 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATAT-TG
1 ATGCCATGTCCCAGAAATGGTCTTACATGTAATCACATATACG
* * * *
84459407 ATGCCACTGTCCCAGAAAAGGTCTTACACGAAATCATA-ATACG
1 ATGCCA-TGTCCCAGAAATGGTCTTACATGTAATCACATATACG
84459450 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACAT
1 ATGCC-ATGTCCCAGAAATGGTCTTACATGTAATCACAT
84459489 CTCGATAACC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 8 0.12
43 57 0.86
44 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCATGTCCCAGAAATGGTCTTACATGTAATCACATATACG
Found at i:84461245 original size:21 final size:20
Alignment explanation
Indices: 84461219--84461261 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
84461209 GGAATTTGAA
84461219 TTGAGT-AGTTGAGGGAGTGGT
1 TTGAGTGAGTTGA-GGAG-GGT
*
84461240 TTGAGTGATTTGAGGAGGGT
1 TTGAGTGAGTTGAGGAGGGT
84461260 TT
1 TT
84461262 TTAGGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (20 bp):
TTGAGTGAGTTGAGGAGGGT
Found at i:84462768 original size:27 final size:27
Alignment explanation
Indices: 84462730--84462911 Score: 231
Period size: 27 Copynumber: 6.7 Consensus size: 27
84462720 CGTACCTGAA
*
84462730 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
* *
84462757 CCCTCATGTGATAAAATTACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
84462784 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
84462811 CCCCCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
84462838 CCTTCATGTGCTAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
84462865 CCCTTATGTGATAAAATGAGGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
*
84462892 CCCTCATAG-GGTAAAATGAC
1 CCCTCAT-GTGATAAAATGAC
84462912 CGAAATACCC
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 137 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:84462920 original size:27 final size:27
Alignment explanation
Indices: 84462898--84462965 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
84462888 TTTACCCTCA
*
84462898 TAGGGTAAAATGACCGAAATACCCCTG
1 TAGGGTAAAATGACCGAAATACCCCGG
* *
84462925 TAGGGTAAAATGACTGTAATACCCCGG
1 TAGGGTAAAATGACCGAAATACCCCGG
*
84462952 TAAGGTAAAATGAC
1 TAGGGTAAAATGAC
84462966 AGATTTGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCGG
Found at i:84464406 original size:29 final size:29
Alignment explanation
Indices: 84464340--84464464 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
84464330 AAGTCTACAT
*
84464340 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
84464368 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
84464397 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
**
84464426 ACATTCATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
84464455 ACATTCATAT
1 ACATTCATAT
84464465 ACATGCTTTC
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 22 0.24
29 69 0.76
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:84464698 original size:16 final size:16
Alignment explanation
Indices: 84464674--84464711 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
84464664 GTAGCCAAAC
84464674 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
84464690 TTTCGGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
84464706 TTTCAG
1 TTTCAG
84464712 GATTTGCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:84473274 original size:85 final size:85
Alignment explanation
Indices: 84473131--84473309 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
84473121 GGCCGGCCAT
84473131 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
84473196 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
84473216 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
84473281 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
84473301 GGGCATGGG
1 GAGCATGGG
84473310 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:84474632 original size:47 final size:47
Alignment explanation
Indices: 84474578--84474935 Score: 533
Period size: 47 Copynumber: 7.6 Consensus size: 47
84474568 TATTTGAATA
*
84474578 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
84474625 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
84474674 AATGTGAAACTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
84474721 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
84474768 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
84474815 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
84474862 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
84474909 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
84474936 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 240 0.83
48 1 0.00
49 46 0.16
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:84479506 original size:11 final size:12
Alignment explanation
Indices: 84479480--84479519 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
84479470 AGCTTTAAAA
84479480 CTTTTGTTTTTC
1 CTTTTGTTTTTC
84479492 CTTTTGTTTTT-
1 CTTTTGTTTTTC
*
84479503 CTTTTCTTCTTTC
1 CTTTTGTT-TTTC
84479516 CTTT
1 CTTT
84479520 CTCCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 7 0.28
12 14 0.56
13 4 0.16
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (12 bp):
CTTTTGTTTTTC
Found at i:84479618 original size:3 final size:3
Alignment explanation
Indices: 84479603--84479651 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
84479593 ATATATTAGT
* *
84479603 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
84479647 TAA TA
1 TAA TA
84479652 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:84479633 original size:16 final size:16
Alignment explanation
Indices: 84479607--84479651 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
84479597 ATTAGTTAAT
84479607 AATATTAATAATAATAC
1 AATA-TAATAATAATAC
* *
84479624 ATTATAATAATAATAT
1 AATATAATAATAATAC
84479640 AATATAATAATA
1 AATATAATAATA
84479652 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAATAATAATAC
Found at i:84479649 original size:13 final size:14
Alignment explanation
Indices: 84479603--84479652 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
84479593 ATATATTAGT
84479603 TAATAATATTAATAA
1 TAATAATA-TAATAA
84479618 TAATACAT-T-ATAA
1 TAATA-ATATAATAA
84479631 TAATAATATAAT-A
1 TAATAATATAATAA
84479644 TAATAATAT
1 TAATAATAT
84479653 TTAATTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 20 0.62
14 3 0.09
15 5 0.16
16 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:84479820 original size:24 final size:23
Alignment explanation
Indices: 84479770--84479822 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
84479760 TTGTCTTCAT
84479770 TTTAATAATTTAATATAAAACTA
1 TTTAATAATTTAATATAAAACTA
*
84479793 --TAATAATTATAATA-AATATCTA
1 TTTAATAATT-TAATATAA-AACTA
84479815 TTTAATAA
1 TTTAATAA
84479823 CAAATACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
24 6 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATAATTTAATATAAAACTA
Found at i:84481620 original size:43 final size:43
Alignment explanation
Indices: 84481532--84481696 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
84481522 ACATATCGAC
* * * *
84481532 GCCATTGTCCCAAACAGGGTCTTACACGAAATC-GAATAACGAT
1 GCCAATGTCCCAAACAGGGTCTTACACGTAATCACAAT-ACAAT
* * *
84481575 GCCAATGTCCCAGACAGGGTATTACGCGTAATCACAATACAAT
1 GCCAATGTCCCAAACAGGGTCTTACACGTAATCACAATACAAT
* * * *
84481618 GCCAATGTCCCAGACATGGTCGTACATGTAATCACAATACAAT
1 GCCAATGTCCCAAACAGGGTCTTACACGTAATCACAATACAAT
* * *
84481661 GCCAACGTCCCAAACATGGTCTTACATGTAATCACA
1 GCCAATGTCCCAAACAGGGTCTTACACGTAATCACA
84481697 TCTAGATAAC
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 103 0.97
44 3 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCAATGTCCCAAACAGGGTCTTACACGTAATCACAATACAAT
Found at i:84486270 original size:28 final size:29
Alignment explanation
Indices: 84486227--84486295 Score: 122
Period size: 28 Copynumber: 2.4 Consensus size: 29
84486217 TACATACATG
*
84486227 CATATGGCCCACTAGGCCCAAATT-CATT
1 CATATGGCCCATTAGGCCCAAATTGCATT
84486255 CATATGGCCCATTAGGCCCAAATTGCATT
1 CATATGGCCCATTAGGCCCAAATTGCATT
84486284 CATATGGCCCAT
1 CATATGGCCCAT
84486296 CCGTCCCGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATTGCATT
Found at i:84486579 original size:8 final size:8
Alignment explanation
Indices: 84486528--84486580 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
84486518 GTAGCCAGAC
*
84486528 TTTCGGCT
1 TTTCGGCA
*
84486536 TTTTGGCA
1 TTTCGGCA
*
84486544 TTTCGGCT
1 TTTCGGCA
*
84486552 TTTCGGTA
1 TTTCGGCA
* *
84486560 TATCGACA
1 TTTCGGCA
84486568 TTTCGGCA
1 TTTCGGCA
84486576 TTTCG
1 TTTCG
84486581 AGATTTGTCG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (8 bp):
TTTCGGCA
Found at i:84490089 original size:29 final size:28
Alignment explanation
Indices: 84490040--84490122 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
84490030 TACGACCCAC
*
84490040 TAGGCCC-AATCTCATTCATATGGCCAAT
1 TAGGCCCAAATCACATTCATATGGCC-AT
*
84490068 TAGGCCCAAATCACATCCATATGGCTCAT
1 TAGGCCCAAATCACATTCATATGGC-CAT
84490097 TAGGCCCAAATCACATTCATATGGCC
1 TAGGCCCAAATCACATTCATATGGCC
84490123 CATCCAACCG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 8 0.16
29 41 0.82
30 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (28 bp):
TAGGCCCAAATCACATTCATATGGCCAT
Found at i:84496330 original size:43 final size:43
Alignment explanation
Indices: 84496283--84496366 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
84496273 GCCGTTGTCC
* * * *
84496283 CAGACAGGGTCTTAGACGAAATC-GAATAACGATGCCAATGTTT
1 CAGACAGGGTATTACACGAAATCACAAT-ACAATGCCAATGTTT
* *
84496326 CAGACATGGTATTACACGTAATCACAATACAATGCCAATGT
1 CAGACAGGGTATTACACGAAATCACAATACAATGCCAATGT
84496367 CCCAAACATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (43 bp):
CAGACAGGGTATTACACGAAATCACAATACAATGCCAATGTTT
Found at i:84499292 original size:48 final size:48
Alignment explanation
Indices: 84499234--84499407 Score: 260
Period size: 48 Copynumber: 3.6 Consensus size: 48
84499224 TGATCCCGTA
* *
84499234 TAAGACCATGTTTGGGATATGGCATCGGCATCGTTATGTGAGCTAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* *
84499282 TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * * **
84499330 TAAGACAATGTTTAGGACATGGCATCGACATCGTTATGTGAGCCAACG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
84499378 TAAGACCATGTTTGGGACAT-GCATCGGCAT
1 TAAGACCATGTTTGGGACATGGCATCGGCAT
84499408 GAGGCATCAT
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 9 0.08
48 103 0.92
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
Found at i:84501154 original size:12 final size:13
Alignment explanation
Indices: 84501137--84501174 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
84501127 TTCCTAGAAT
84501137 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
84501149 ATTAAGAACACATA
1 ATTAAGAACA-AGA
84501163 ATTAAGAACAAG
1 ATTAAGAACAAG
84501175 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:84503680 original size:25 final size:24
Alignment explanation
Indices: 84503634--84503685 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
84503624 CCTAAAATTG
84503634 AAATAATATTAAAGGAAAATAAAAT
1 AAATAATATTAAAGGAAAAT-AAAT
* *
84503659 AAATAGTACTTAAA-GAAGATAAAT
1 AAATAATA-TTAAAGGAAAATAAAT
84503683 AAA
1 AAA
84503686 GATAAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 12 0.50
26 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (24 bp):
AAATAATATTAAAGGAAAATAAAT
Found at i:84505043 original size:43 final size:43
Alignment explanation
Indices: 84504995--84505127 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
84504985 AGACATCGTG
84504995 TAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
1 TAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
** * ** * * *
84505038 TAAGACCA-TGTCTGGGACATTGGCATCGTATCT-ATTTTTTCTTG
1 TAAGA-CAGTGTCTGGGACACAGGCCTCG-AT-TGAGATTTACGTA
*
84505082 TAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
1 TAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
84505125 TAA
1 TAA
84505128 AACCATGTAT
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 34 0.50
44 32 0.47
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
Found at i:84505141 original size:87 final size:88
Alignment explanation
Indices: 84504993--84505162 Score: 297
Period size: 87 Copynumber: 1.9 Consensus size: 88
84504983 TGAGACATCG
* *
84504993 TGTAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
*
84505058 TGGCATCGTATCT-ATTTTTTCT
66 CGGCATCGTATCTGATTTTTTCT
*
84505080 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
1 TGTAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
84505145 CGGCATCGTATCTGATTT
66 CGGCATCGTATCTGATTT
84505163 CATGTAAGAC
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 74 0.95
88 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (88 bp):
TGTAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
CGGCATCGTATCTGATTTTTTCT
Found at i:84505162 original size:43 final size:43
Alignment explanation
Indices: 84505028--84505179 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 43
84505018 CCTCGATTGA
*
84505028 GATTTACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
* * * * *
84505071 -ATTTTTTCTTGTAAGACCGTGTCTGGGACA-CAGGCCTCG-AT-T
1 GA--TTTACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCT
* *
84505113 GAGATTTACGTATAAAACCATGTATGGGACATCGGCATCGTATCT
1 --GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
* * *
84505158 GATTT-CATGTAAGACCCTGTCT
1 GATTTACGTATAAGACCATGTCT
84505180 AGGATAGAGG
Statistics
Matches: 82, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
42 14 0.17
43 34 0.41
44 32 0.39
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
Found at i:84505201 original size:87 final size:85
Alignment explanation
Indices: 84504993--84505196 Score: 257
Period size: 87 Copynumber: 2.4 Consensus size: 85
84504983 TGAGACATCG
** * * * *
84504993 TGTAAGACAGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
* *
84505058 TGGCATCGTATCTATTTTTTCT
66 CGGCATCGTATCTA--TTTTCA
* * *
84505080 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
1 TGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
84505145 CGGCATCGTATCTGA-TTTCA
66 CGGCATCGTATCT-ATTTTCA
* *
84505165 TGTAAGACCCTGTCTAGGATAGAGGCATCGAT
1 TGTAAGACCCTGTCTAGGACACAGGCATCGAT
84505197 ATTGAATTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
85 31 0.29
87 74 0.70
88 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
TGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACGTATAAAACCATGTATGGGACAT
CGGCATCGTATCTATTTTCA
Found at i:84514341 original size:78 final size:78
Alignment explanation
Indices: 84514212--84514367 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
84514202 TAGTTCCTCG
84514212 AGTTGTAGCCTTCGTTCTTCATAGATAAGTCTTTTGTCGTTACTCGAACATGGCTCAGGTGTGTT
1 AGTTGTAGCCTTCGTTCTTCATAGATAAGTCTTTTGTCGTTACTCGAACATGGCTCAGGTGTGTT
*
84514277 CTTTGAACGTGTT
66 CTCTGAACGTGTT
*
84514290 AGTTGTAGCCTTCGTTCTTCATAGATAGGTCTTTTGTCGTTACTCGAACATGGCTCAGGTGTGTT
1 AGTTGTAGCCTTCGTTCTTCATAGATAAGTCTTTTGTCGTTACTCGAACATGGCTCAGGTGTGTT
84514355 CTCTGAACGTGTT
66 CTCTGAACGTGTT
84514368 TCCTGCCAGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (78 bp):
AGTTGTAGCCTTCGTTCTTCATAGATAAGTCTTTTGTCGTTACTCGAACATGGCTCAGGTGTGTT
CTCTGAACGTGTT
Found at i:84517416 original size:12 final size:13
Alignment explanation
Indices: 84517399--84517436 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
84517389 TTCCTGGTAT
84517399 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
84517411 ATTAAGAACACATA
1 ATTAAGAACA-AGA
84517425 ATTAAGAACAAG
1 ATTAAGAACAAG
84517437 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:84518366 original size:23 final size:24
Alignment explanation
Indices: 84518310--84518368 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
84518300 AAATAAATTA
* *
84518310 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
84518334 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
84518358 TTTTATTACAA
1 TTTTATTACAA
84518369 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:84520115 original size:16 final size:15
Alignment explanation
Indices: 84520089--84520120 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
84520079 GCTAGATCGG
84520089 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
84520104 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
84520120 C
1 C
84520121 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:84520453 original size:28 final size:28
Alignment explanation
Indices: 84520370--84520458 Score: 142
Period size: 28 Copynumber: 3.2 Consensus size: 28
84520360 TACTATTATA
84520370 CCCTATGTATGCAAAATTACCATAATAC
1 CCCTATGTATGCAAAATTACCATAATAC
*
84520398 CTCTATGTATGCAAAATTACCATAATAC
1 CCCTATGTATGCAAAATTACCATAATAC
* * *
84520426 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATTACCATAATAC
84520454 CCCTA
1 CCCTA
84520459 GGGTTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (28 bp):
CCCTATGTATGCAAAATTACCATAATAC
Found at i:84520622 original size:27 final size:27
Alignment explanation
Indices: 84520564--84520653 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
84520554 AGGAAGCGTC
*
84520564 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
84520592 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
84520619 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
84520648 CTGGTG
1 CTGGTG
84520654 ACTCCGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:84520664 original size:29 final size:28
Alignment explanation
Indices: 84520575--84520664 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
84520565 TGGTGGCTAT
* * *
84520575 GCCACAAATTATCTATTCTGGTGGC-CC
1 GCCACAAAATATCTGTTCTGGTGACACC
* * *
84520602 TGCCAC-ATATATCTGTTCTGGTGGCACT
1 -GCCACAAAATATCTGTTCTGGTGACACC
*
84520630 GCCACAAAATATCTGTATCTGGTGACTCC
1 GCCACAAAATATCTGT-TCTGGTGACACC
*
84520659 GTCACA
1 GCCACA
84520665 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.42
28 15 0.30
29 14 0.28
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGACACC
Found at i:84521145 original size:18 final size:18
Alignment explanation
Indices: 84521106--84521146 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
84521096 TAATAAGGCC
* *
84521106 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
84521124 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
84521142 TTTTA
1 TTTTA
84521147 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:84525158 original size:23 final size:24
Alignment explanation
Indices: 84525118--84525164 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
84525108 TGAAATACAT
84525118 GAAAATGATGATACATGATATATG
1 GAAAATGATGATACATGATATATG
84525142 GAAATATGA-GATA-ATGATATATG
1 GAAA-ATGATGATACATGATATATG
84525165 AACATGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (24 bp):
GAAAATGATGATACATGATATATG
Found at i:84525412 original size:35 final size:35
Alignment explanation
Indices: 84525366--84525434 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
84525356 ACATGGAAAG
84525366 TATATGTACGTGGAAATCTAATTATTATTGAGCCT
1 TATATGTACGTGGAAATCTAATTATTATTGAGCCT
84525401 TATATGTACGTGGAAATCTAATTATTATTGAGCC
1 TATATGTACGTGGAAATCTAATTATTATTGAGCC
84525435 CATACATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (35 bp):
TATATGTACGTGGAAATCTAATTATTATTGAGCCT
Found at i:84527868 original size:262 final size:262
Alignment explanation
Indices: 84527403--84527925 Score: 1010
Period size: 262 Copynumber: 2.0 Consensus size: 262
84527393 CGAGTTCACT
84527403 TATGGGCGGGTTACATGGTAGCTTGGCTACATAAGTTCCGCAAGCTATTGAGTTTGTCTAGCTAC
1 TATGGGCGGGTTACATGGTAGCTTGGCTACATAAGTTCCGCAAGCTATTGAGTTTGTCTAGCTAC
*
84527468 GGGTATGGTAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGGTTTGGTAAGAAAA
66 GGGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGGTTTGGTAAGAAAA
84527533 GGGTTTGTGAATGATTAGCCATTGGAATGGCCAATCTAAATCATATTTGATGCCATGTATGTTTA
131 GGGTTTGTGAATGATTAGCCATTGGAATGGCCAATCTAAATCATATTTGATGCCATGTATGTTTA
84527598 AAATGCTATTTAGTCTATGGAAATCTATAGTAAAGTGAAATTTGTTATAAAACAAAATATTGCTG
196 AAATGCTATTTAGTCTATGGAAATCTATAGTAAAGTGAAATTTGTTATAAAACAAAATATTGCTG
84527663 TG
261 TG
*
84527665 TATGGGCGGGTTACATGGTAGCTTGGCTACATAAGTTCCGCAGGCTATTGAGTTTGTCTAGCTAC
1 TATGGGCGGGTTACATGGTAGCTTGGCTACATAAGTTCCGCAAGCTATTGAGTTTGTCTAGCTAC
*
84527730 GGGTATGGCAAAATACTCACTTTTTGTAAATGATTTTATGACATGGTTATGGTTTGGTAAGAAAA
66 GGGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGGTTTGGTAAGAAAA
84527795 GGGTTTGTGAATGATTAGCCATTGGAATGGCCAATCTAAATCATATTTGATGCCATGTATGTTTA
131 GGGTTTGTGAATGATTAGCCATTGGAATGGCCAATCTAAATCATATTTGATGCCATGTATGTTTA
*
84527860 AAATGCTATTTAGTCTATGGAAATCTATAGTAAAGTGAAATTTGTTATAAAACAGAATATTGCTG
196 AAATGCTATTTAGTCTATGGAAATCTATAGTAAAGTGAAATTTGTTATAAAACAAAATATTGCTG
84527925 T
261 T
84527926 AGCAATGATG
Statistics
Matches: 257, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 257 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (262 bp):
TATGGGCGGGTTACATGGTAGCTTGGCTACATAAGTTCCGCAAGCTATTGAGTTTGTCTAGCTAC
GGGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGGTTTGGTAAGAAAA
GGGTTTGTGAATGATTAGCCATTGGAATGGCCAATCTAAATCATATTTGATGCCATGTATGTTTA
AAATGCTATTTAGTCTATGGAAATCTATAGTAAAGTGAAATTTGTTATAAAACAAAATATTGCTG
TG
Found at i:84540845 original size:9 final size:9
Alignment explanation
Indices: 84540831--84540859 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
84540821 AGGTATCCAA
84540831 AGAAAGATT
1 AGAAAGATT
84540840 AGAAAGATT
1 AGAAAGATT
84540849 AGAAAGATT
1 AGAAAGATT
84540858 AG
1 AG
84540860 TCCAAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (9 bp):
AGAAAGATT
Found at i:84541057 original size:15 final size:14
Alignment explanation
Indices: 84541037--84541072 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
84541027 ATTCAAAAAA
84541037 TATTTTATCACTTTT
1 TATTTTATCAC-TTT
84541052 TATTTTTATCACTTT
1 TA-TTTTATCACTTT
84541067 TATTTT
1 TATTTT
84541073 TTGCTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTATCACTTT
Found at i:84541074 original size:16 final size:16
Alignment explanation
Indices: 84541039--84541073 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
84541029 TCAAAAAATA
84541039 TTTTATCACTTTTTAT
1 TTTTATCACTTTTTAT
84541055 TTTTATCAC-TTTTAT
1 TTTTATCACTTTTTAT
84541070 TTTT
1 TTTT
84541074 TGCTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATCACTTTTTAT
Found at i:84544086 original size:116 final size:116
Alignment explanation
Indices: 84543822--84544170 Score: 569
Period size: 116 Copynumber: 3.0 Consensus size: 116
84543812 TTAGTGGCAC
* * * *
84543822 TTTTGCAAAAAA-GCCGCTAATAATTTCAGCAAGACATAGTCGTTTCGTTTCGACCCTTAGTTTC
1 TTTTACAAAAAACGCCGCTAATAATTTCAGCAAGACGTAGTCGTTTCGTTTCGGCCCTTAGTTTT
*
84543886 ATTAGCGGCGTTTCT-AAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGC
66 ATTAGCGGCGTTTCTAAAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGA
*
84543936 TTTTACAAAAAACGCCACTAATAATTTCAGCAAGACGTAGTCGTTTCGTTTCGGCCCTTAGTTTT
1 TTTTACAAAAAACGCCGCTAATAATTTCAGCAAGACGTAGTCGTTTCGTTTCGGCCCTTAGTTTT
*
84544001 ATTAGCGGCATTTCTAAAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGA
66 ATTAGCGGCGTTTCTAAAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGA
* *
84544052 TTTTACAAAAAACGCCGCCAATAATTTCAGCAAGACGCAGTCGTTTCGTTTCGGCCCTTAGTTTT
1 TTTTACAAAAAACGCCGCTAATAATTTCAGCAAGACGTAGTCGTTTCGTTTCGGCCCTTAGTTTT
* * *
84544117 ATTAGCGGTGTTTC-AAAAAAACACCACTAAAGGTTGAGTATTAGCGGCGT
66 ATTAGCGGCGTTTCTAAAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGA
84544167 TTTT
1 TTTT
84544171 TTTAACAAAC
Statistics
Matches: 219, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
114 11 0.05
115 100 0.46
116 108 0.49
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (116 bp):
TTTTACAAAAAACGCCGCTAATAATTTCAGCAAGACGTAGTCGTTTCGTTTCGGCCCTTAGTTTT
ATTAGCGGCGTTTCTAAAAAAACGCCACTAAAGGTTGAGTATTAGCGGCGA
Found at i:84544774 original size:21 final size:22
Alignment explanation
Indices: 84544733--84544783 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
84544723 GGGATTATGG
* *
84544733 GTTTAGGGGTTGTGGTTTAAA-
1 GTTTAGGGATTGTGGTGTAAAT
84544754 GTTTAGGGATTAGTGG-GTAAAT
1 GTTTAGGGATT-GTGGTGTAAAT
*
84544776 GTTAAGGG
1 GTTTAGGG
84544784 TTATGGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (22 bp):
GTTTAGGGATTGTGGTGTAAAT
Found at i:84544926 original size:28 final size:29
Alignment explanation
Indices: 84544868--84544926 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
84544858 ATGGGAGAGG
* *
84544868 GGTTTATGGTTTTTGAGTTAATGTTTTAA
1 GGTTTAGGGATTTTGAGTTAATGTTTTAA
*
84544897 GGTTTAGGGATTTTG-GTTTATGTTTTAA
1 GGTTTAGGGATTTTGAGTTAATGTTTTAA
84544925 GG
1 GG
84544927 GTTGGGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.53
Consensus pattern (29 bp):
GGTTTAGGGATTTTGAGTTAATGTTTTAA
Found at i:84544929 original size:29 final size:30
Alignment explanation
Indices: 84544867--84544929 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
84544857 TATGGGAGAG
* *
84544867 GGGTTTATGGTTTTTGAGTTAATGTTTTAA
1 GGGTTTAGGGATTTTGAGTTAATGTTTTAA
*
84544897 -GGTTTAGGGATTTTG-GTTTATGTTTTAA
1 GGGTTTAGGGATTTTGAGTTAATGTTTTAA
84544925 GGGTT
1 GGGTT
84544930 GGGGTTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.52
Consensus pattern (30 bp):
GGGTTTAGGGATTTTGAGTTAATGTTTTAA
Found at i:84544944 original size:21 final size:21
Alignment explanation
Indices: 84544892--84544950 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
84544882 GAGTTAATGT
**
84544892 TTTAAGGTTT-AGGGATTTTGG
1 TTTAAGGTTTAAGGG-TTGGGG
* *
84544913 TTTATGTTTTAAGGGTTGGGG
1 TTTAAGGTTTAAGGGTTGGGG
*
84544934 TTTAAGGTTTAGGGGTT
1 TTTAAGGTTTAAGGGTT
84544951 AATGGTTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTGGGG
Found at i:84544980 original size:15 final size:14
Alignment explanation
Indices: 84544868--84544998 Score: 66
Period size: 14 Copynumber: 8.9 Consensus size: 14
84544858 ATGGGAGAGG
**
84544868 GGTTTATGGTTTTT
1 GGTTTATGGTTTAA
* *
84544882 GAGTTAATGTTTTAA
1 G-GTTTATGGTTTAA
* *
84544897 GGTTTAGGGATTT-T
1 GGTTTATGG-TTTAA
*
84544911 GGTTTATGTTTTAA
1 GGTTTATGGTTTAA
* **
84544925 GGGTTGGGGTTTAA
1 GGTTTATGGTTTAA
* *
84544939 GGTTTAGGGGTTAA
1 GGTTTATGGTTTAA
84544953 TGGTTAATCATGGTTTAA
1 -GGTT--T-ATGGTTTAA
*
84544971 GGTTTCATGGTTTAGG
1 GGTTT-ATGGTTTA-A
84544987 GGTTTATGGTTT
1 GGTTTATGGTTT
84544999 GGGGTTTAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
13 3 0.03
14 34 0.39
15 34 0.39
16 5 0.06
17 5 0.06
18 7 0.08
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:84545310 original size:26 final size:27
Alignment explanation
Indices: 84545244--84545311 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 27
84545234 TCAAAATTTA
84545244 AAGATTTCAAA-TTTAGAATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
*
84545270 AAGATTTTAAATTTTA-AATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
*
84545296 AATATTTCAAATTTTA
1 AAGATTTCAAATTTTA
84545312 TCTAACTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
AAGATTTCAAATTTTAGAATAATTTTC
Found at i:84545456 original size:18 final size:17
Alignment explanation
Indices: 84545425--84545459 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84545415 TAGTTGATTG
*
84545425 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
84545442 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
84545460 AATAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:84547412 original size:48 final size:48
Alignment explanation
Indices: 84547360--84547472 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 48
84547350 CCATGTTAAC
* ** * * * *
84547360 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAAT
* *
84547408 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAAT
*
84547456 TCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
84547473 AAATCATTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAAT
Found at i:84547417 original size:24 final size:24
Alignment explanation
Indices: 84547390--84547472 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
84547380 TAATTCACAT
* * *
84547390 ACATATTGACATTCCAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
*
84547414 ACATAGTGCCATACAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
*
84547438 ACATAGTGCCATTCAAATTCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
84547462 ACATAGTGCCA
1 ACATAGTGCCA
84547473 AAATCATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.22
Consensus pattern (24 bp):
ACATAGTGCCATTCAAATCCGCAC
Found at i:84554985 original size:24 final size:24
Alignment explanation
Indices: 84554973--84555064 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
84554963 TTGACATTCC
84554973 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
84554997 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
84555021 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
84555045 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
84555065 AAATCATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:84555010 original size:48 final size:48
Alignment explanation
Indices: 84554930--84555061 Score: 156
Period size: 48 Copynumber: 2.8 Consensus size: 48
84554920 ATGTTAACCT
* ** * * * * *
84554930 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCC
1 GCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCC
* * *
84554978 GCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAATTC
1 GCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCC
*
84555026 GCACACATAGTGCCATTCAAATTCGCACACATAGTG
1 GCACACATAGTGCCATACAAATTCGCACACATAGTG
84555062 CCAAAATCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (48 bp):
GCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCC
Found at i:84555034 original size:72 final size:72
Alignment explanation
Indices: 84554930--84555064 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 72
84554920 ATGTTAACCT
* ** * * *
84554930 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCATA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
84554995 CAAATCC
66 CAAATCC
* * *
84555002 GCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
84555065 AAATCATTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.23
Consensus pattern (72 bp):
GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
CAAATCC
Found at i:84556260 original size:17 final size:17
Alignment explanation
Indices: 84556238--84556271 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84556228 CCCCACTTAA
*
84556238 TATATTATAACTTATTT
1 TATATTATAACATATTT
84556255 TATATTATAACATATTT
1 TATATTATAACATATTT
84556272 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:84559487 original size:64 final size:64
Alignment explanation
Indices: 84559386--84559578 Score: 343
Period size: 64 Copynumber: 3.0 Consensus size: 64
84559376 TTTTTGTAAC
84559386 TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATAT
1 TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATAT
*
84559450 TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAAATAT
1 TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATAT
* * *
84559514 TTTTATCACGATTTTTAATATATTTATTTATTAATATAATATGT-CCATCTAATATACAAATAT
1 TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATAT
84559577 TT
1 TT
84559579 AATAAAATAT
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 20 0.16
64 104 0.84
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (64 bp):
TTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATAT
Found at i:84559695 original size:24 final size:24
Alignment explanation
Indices: 84559626--84559696 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
84559616 GTTATTATTG
* *
84559626 AAATATTCTCGTCCGTTTTATAAC
1 AAATATTATCGTCCGTTTTATCAC
*
84559650 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
84559674 AAATATTATCGTTCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
84559697 TTTAAGTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:84560079 original size:9 final size:9
Alignment explanation
Indices: 84560047--84560340 Score: 223
Period size: 9 Copynumber: 33.4 Consensus size: 9
84560037 CATAATTTAC
84560047 ATAACTTA-
1 ATAACTTAT
* *
84560055 ATAAACGTAC
1 AT-AACTTAT
84560065 ATAACTTAT
1 ATAACTTAT
*
84560074 ATAACTTAG
1 ATAACTTAT
*
84560083 ATAA-ATAT
1 ATAACTTAT
84560091 ATAACTTAT
1 ATAACTTAT
*
84560100 ATAACTTAC
1 ATAACTTAT
*
84560109 ATGACTTAT
1 ATAACTTAT
* *
84560118 ATAACATAC
1 ATAACTTAT
84560127 ATAACTTAT
1 ATAACTTAT
84560136 ATAACTTAT
1 ATAACTTAT
*
84560145 ATAACTTAG
1 ATAACTTAT
*
84560154 ATAA-ATAT
1 ATAACTTAT
*
84560162 ATAACTTAC
1 ATAACTTAT
84560171 ATAACTTAT
1 ATAACTTAT
*
84560180 ATAACTTAC
1 ATAACTTAT
84560189 AT-A-TATAT
1 ATAACT-TAT
*
84560197 ATAACTTAC
1 ATAACTTAT
*
84560206 ATAA-ATAT
1 ATAACTTAT
* *
84560214 ATATCATAT
1 ATAACTTAT
*
84560223 CATAACTTAC
1 -ATAACTTAT
*
84560233 ATAACTTAC
1 ATAACTTAT
84560242 AT-A--TAT
1 ATAACTTAT
84560248 ATAACTTAT
1 ATAACTTAT
*
84560257 ATAACTTAC
1 ATAACTTAT
84560266 ATAACTTAT
1 ATAACTTAT
*
84560275 ATAACTTAG
1 ATAACTTAT
*
84560284 ATAA-ATAT
1 ATAACTTAT
* *
84560292 ATAATTTAC
1 ATAACTTAT
*
84560301 ATAA-ATAT
1 ATAACTTAT
* *
84560309 ATATCATAT
1 ATAACTTAT
*
84560318 CATAACTTAA
1 -ATAACTTAT
*
84560328 ATAACTTAC
1 ATAACTTAT
84560337 ATAA
1 ATAA
84560341 TACTTAAATA
Statistics
Matches: 226, Mismatches: 45, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
6 4 0.02
7 2 0.01
8 36 0.16
9 169 0.75
10 15 0.07
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:84560116 original size:35 final size:35
Alignment explanation
Indices: 84560062--84560304 Score: 249
Period size: 35 Copynumber: 7.2 Consensus size: 35
84560052 TTAATAAACG
84560062 TACATAACTTATATAACTTAGATAAATATATAACT
1 TACATAACTTATATAACTTAGATAAATATATAACT
* * * * *
84560097 TATATAACTTACATGACTTATATAACATACATAACT
1 TACATAACTTATATAACTTAGATAA-ATATATAACT
*
84560133 TATATAACTTATATAACTTAGATAAATATATAACT
1 TACATAACTTATATAACTTAGATAAATATATAACT
* *
84560168 TACATAACTTATATAACTTACATATATATATAACT
1 TACATAACTTATATAACTTAGATAAATATATAACT
*
84560203 TACATAA---ATAT-A--T--AT-CATATCATAACT
1 TACATAACTTATATAACTTAGATAAATAT-ATAACT
* * **
84560230 TACATAACTTACAT-A-TATATA-ACTTATATAACT
1 TACATAACTTATATAACT-TAGATAAATATATAACT
*
84560263 TACATAACTTATATAACTTAGATAAATATATAATT
1 TACATAACTTATATAACTTAGATAAATATATAACT
84560298 TACATAA
1 TACATAA
84560305 ATATATATCA
Statistics
Matches: 175, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.02
27 15 0.09
29 1 0.01
30 4 0.02
31 1 0.01
32 5 0.03
33 19 0.11
34 9 0.05
35 86 0.49
36 31 0.18
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (35 bp):
TACATAACTTATATAACTTAGATAAATATATAACT
Found at i:84560116 original size:62 final size:62
Alignment explanation
Indices: 84560033--84560279 Score: 276
Period size: 62 Copynumber: 4.0 Consensus size: 62
84560023 AATATATTTG
* *
84560033 ATATCATAATTTACATAACTTA-ATAAACGTACATAACTTATATAACTTAGATAA-ATATATAAC
1 ATAT-ATAACTTACATAACTTATAT-AAC-TACATAACTTATATAACTTACATAACATATATAAC
* * * * *
84560096 TTATATAACTTACATGACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTATATAAC-TACATAACTTATATAACTTACATAACATATATAAC
*
84560158 ATATATAACTTACATAACTTATATAACTTACAT-A-TATATATAACTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTATATAAC-TACATAACT-TATATAACTTACATAACATATATAAC
* * *
84560219 ATATCATAACTTACATAACTTACAT-A-TATATAACTTATATAACTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTATATAACTACATAACTTATATAACTTACATAACATATATAAC
84560280 TTAGATAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
59 4 0.03
60 23 0.15
61 29 0.18
62 91 0.58
63 11 0.07
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (62 bp):
ATATATAACTTACATAACTTATATAACTACATAACTTATATAACTTACATAACATATATAAC
Found at i:84560353 original size:95 final size:94
Alignment explanation
Indices: 84560065--84560354 Score: 343
Period size: 95 Copynumber: 3.0 Consensus size: 94
84560055 ATAAACGTAC
* * * * * ** *
84560065 ATAACTTATATAACTTAGATAA-ATATATAACTTATATAACTTACATGACTTATATAACATA-CA
1 ATAACTTACATAACTTATATAACTTACATAA-ATATATAACTTACAT-AAATATATATCATATCA
* * *
84560128 TAACTTATATAACTTATATAACTTAGATAAATAT
64 TAACTTAAATAACTTACATAA--TA-TTAAATAT
*
84560162 ATAACTTACATAACTTATATAACTTACATATATATATAACTTACATAAATATATATCATATCATA
1 ATAACTTACATAACTTATATAACTTACATAAATATATAACTTACATAAATATATATCATATCATA
* *
84560227 ACTTACATAACTTACAT-ATATATAACTTAT
66 ACTTAAATAACTTACATAATAT-TAA-ATAT
* *
84560257 ATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATA
1 ATAACTTACATAACTTATATAACTTACATAAATATATAACTTACATAAATATATATCATATCATA
84560322 ACTTAAATAACTTACATAATACTTAAATAT
66 ACTTAAATAACTTACATAATA-TTAAATAT
84560352 ATA
1 ATA
84560355 TCATTCATAT
Statistics
Matches: 169, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
94 5 0.03
95 87 0.51
96 18 0.11
97 54 0.32
98 5 0.03
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (94 bp):
ATAACTTACATAACTTATATAACTTACATAAATATATAACTTACATAAATATATATCATATCATA
ACTTAAATAACTTACATAATATTAAATAT
Found at i:84562226 original size:12 final size:12
Alignment explanation
Indices: 84562209--84562233 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84562199 AAGATCGAGG
84562209 GATGAATCTGAT
1 GATGAATCTGAT
84562221 GATGAATCTGAT
1 GATGAATCTGAT
84562233 G
1 G
84562234 GAGAGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:84565561 original size:13 final size:14
Alignment explanation
Indices: 84565545--84565573 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84565535 TTCTAAATAT
84565545 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
84565558 TTATAATTGTTTAA
1 TTATAATTGTTTAA
84565572 TT
1 TT
84565574 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:84566073 original size:21 final size:21
Alignment explanation
Indices: 84565987--84566062 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
84565977 ACTTAGAATG
* *
84565987 GAGGCAACAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
84566008 GCGACAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
84566029 GAGGCA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
84566050 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
84566063 TGGCAGCAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 45 0.96
22 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.49, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:84566502 original size:43 final size:43
Alignment explanation
Indices: 84566446--84566549 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
84566436 CGTTTGTGGG
* * * *
84566446 AAAAGCGCAGCTAAAAGTAATGGCTTTTAGCGGC-GTTTGCCAA
1 AAAAACGCCGCTAAAAGTAATGACTTTTAGCGGCACTTT-CCAA
** *
84566489 AAAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTTCCCA
1 AAAAACGCCGCTAAAAGTAATGACTTTTAGCGGCACTTTCCAA
*
84566532 ACAAACGCCGCTAAAAGT
1 AAAAACGCCGCTAAAAGT
84566550 CTATTTTCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTAATGACTTTTAGCGGCACTTTCCAA
Found at i:84570572 original size:112 final size:112
Alignment explanation
Indices: 84570375--84570593 Score: 359
Period size: 112 Copynumber: 2.0 Consensus size: 112
84570365 CTAAGGATAC
* * * * *
84570375 TGATGCACTCACTCTTGATGAAATTCAGAGCTCATTTTTGGTCCATGAGCAGAATATTAACAGAA
1 TGATGAACTCACTCTTGATGAAATTCAGAGCTCATTGTTGGTCCATGAGCAGAAGATGAACAAAA
*
84570440 CTTCTACCTCAATAGAGCAGGCTTTGAAAGTTTCAACTCATTACTCT
66 CTTCTACCTCAATAGAGCAGGCTTTGAAAGCTTCAACTCATTACTCT
*
84570487 TGATGAACTCACTCTTGAT-AAACTTCAGAGCTCCTTGTTGGTCCATGAGCAGAAGATGAACAAA
1 TGATGAACTCACTCTTGATGAAA-TTCAGAGCTCATTGTTGGTCCATGAGCAGAAGATGAACAAA
84570551 ACTTCTACCTCAATAGAGCAGGCTTTGAAAGCTTCAACTCATT
65 ACTTCTACCTCAATAGAGCAGGCTTTGAAAGCTTCAACTCATT
84570594 CTTTCAGAGG
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 3 0.03
112 96 0.97
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (112 bp):
TGATGAACTCACTCTTGATGAAATTCAGAGCTCATTGTTGGTCCATGAGCAGAAGATGAACAAAA
CTTCTACCTCAATAGAGCAGGCTTTGAAAGCTTCAACTCATTACTCT
Found at i:84573281 original size:20 final size:19
Alignment explanation
Indices: 84573245--84573286 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
84573235 AATATATGTA
84573245 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
84573265 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
84573284 TTA
1 TTA
84573287 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:84573301 original size:23 final size:18
Alignment explanation
Indices: 84573245--84573286 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
84573235 AATATATGTA
84573245 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
84573265 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
84573284 TTA
1 TTA
84573287 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:84573452 original size:16 final size:16
Alignment explanation
Indices: 84573427--84573457 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84573417 TATTATACAT
84573427 TTTTAAATTATTATTA
1 TTTTAAATTATTATTA
*
84573443 TTTTACATTATTATT
1 TTTTAAATTATTATT
84573458 TATATATTTT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATTATTATTA
Found at i:84573481 original size:19 final size:19
Alignment explanation
Indices: 84573452--84573503 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
84573442 ATTTTACATT
84573452 ATTATTTATATATTT-TTA
1 ATTATTTATATATTTATTA
* * *
84573470 CTTGTGTTATATCTTTATTA
1 ATTAT-TTATATATTTATTA
84573490 ATTATTTATATATT
1 ATTATTTATATATT
84573504 ATACATTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
ATTATTTATATATTTATTA
Found at i:84576003 original size:27 final size:28
Alignment explanation
Indices: 84575919--84576016 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
84575909 CATGAGATTG
* * * *
84575919 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
84575948 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
84575976 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
84576003 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
84576017 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:84576027 original size:27 final size:27
Alignment explanation
Indices: 84575947--84576029 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
84575937 TAAATTGTAC
* *
84575947 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
84575975 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
84576002 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
84576029 A
1 A
84576030 TTTTTTTGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Done.