Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 16 of 332
Found at i:4528064 original size:27 final size:26
Alignment explanation
Indices: 4528047--4528116 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
4528037 ATATTAAGTC
4528047 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
4528074 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
4528102 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
4528117 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:4528110 original size:28 final size:28
Alignment explanation
Indices: 4528047--4528144 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
4528037 ATATTAAGTC
*
4528047 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
4528074 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
4528102 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
4528131 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4528145 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:4528608 original size:12 final size:12
Alignment explanation
Indices: 4528591--4528616 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4528581 TGGGCATACT
4528591 TATGTATATATA
1 TATGTATATATA
4528603 TATGTATATATA
1 TATGTATATATA
4528615 TA
1 TA
4528617 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:4534026 original size:14 final size:16
Alignment explanation
Indices: 4533991--4534027 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4533981 CAAACGATAT
4533991 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
4534006 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
4534021 -ATGCAAA
1 GATGCAAA
4534028 AAAGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:4538113 original size:5 final size:5
Alignment explanation
Indices: 4538103--4538145 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
4538093 AATTATATAT
* * *
4538103 ATAAA ATAAA ATAAC A-AAA TTCAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
4538146 GGATTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
4 2 0.06
5 29 0.94
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:4540144 original size:205 final size:206
Alignment explanation
Indices: 4539700--4540206 Score: 822
Period size: 205 Copynumber: 2.5 Consensus size: 206
4539690 CTGCTTCTTT
* *
4539700 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGTTTCAGT-ATAAACACGTG
1 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCA-TCGTAAACACGTG
** *
4539764 AAAGCCAAATCAGCTACATCTTCGATTTGTTCCTTGTAAGCACATGGATGCCAAATCATCCTGGA
65 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCCTGGA
* *
4539829 TCTTGCTTCAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGTAGAG
130 TATTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGTAGAG
4539894 ATGCCAGACTTC
195 ATGCCAGACTTC
*
4539906 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
* * *
4539971 AAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCAGAAGGATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCCTGGAT
* * *
4540036 ATT-CTTCAGTCTAATCGTCTGAAGGTCAGATTTGCTGTGTATCTGCTCT-TCATTGAAGTGGAG
131 ATTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCT-ATTGAAGTAGAG
4540099 ATGCCAGACTTC
195 ATGCCAGACTTC
*
4540111 GATTTGTTCTATGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
* *
4540176 CAGCCAAATCAGCTATGTCTTCGATCTGTTC
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTC
4540207 TCTGCCAATA
Statistics
Matches: 280, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
204 1 0.00
205 158 0.56
206 121 0.43
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (206 bp):
GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCCTGGAT
ATTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGTAGAGA
TGCCAGACTTC
Found at i:4540285 original size:44 final size:44
Alignment explanation
Indices: 4540178--4540285 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
4540168 ACACGTGACA
* * *
4540178 GCCAAATCAGCTATGTCTTCGATCTGTTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
4540224 GCCAAATCTGGTATCTTCGATCTGCTCTTTGACAATACGGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
4540268 GTCGAATCTGCTCTCTTC
1 GCCAAATCTGCTATCTTC
4540286 AACTTGTTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 41 0.79
46 11 0.21
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:4546272 original size:14 final size:16
Alignment explanation
Indices: 4546237--4546273 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4546227 CAAACGATAT
4546237 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
4546252 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
4546267 -ATGCAAA
1 GATGCAAA
4546274 AAAGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:4558582 original size:93 final size:92
Alignment explanation
Indices: 4558454--4558640 Score: 347
Period size: 93 Copynumber: 2.0 Consensus size: 92
4558444 CAATTTAGAG
*
4558454 TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTTCTTACCTTTC
1 TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTTC
4558519 TTGTACTTTATAATATAAGGAAAATAT
66 TTGTACTTTATAATATAAGGAAAATAT
*
4558546 TCCAAATAAGATAAAATAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTT
1 TCCAAATAAGAT-AAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTT
4558611 CTTGTACTTTATAATATAAGGAAAATAT
65 CTTGTACTTTATAATATAAGGAAAATAT
4558639 TC
1 TC
4558641 TAAGAATTCT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 12 0.13
93 80 0.87
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (92 bp):
TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTTC
TTGTACTTTATAATATAAGGAAAATAT
Found at i:4560314 original size:21 final size:21
Alignment explanation
Indices: 4560288--4560327 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4560278 TAACGGGACT
4560288 GCTGATATGGCAAGTTAACCA
1 GCTGATATGGCAAGTTAACCA
*
4560309 GCTGATGTGGCAAGTTAAC
1 GCTGATATGGCAAGTTAAC
4560328 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (21 bp):
GCTGATATGGCAAGTTAACCA
Found at i:4560409 original size:3 final size:3
Alignment explanation
Indices: 4560397--4560428 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4560387 GGTTAATAAC
4560397 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
4560429 GACTGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4561700 original size:3 final size:3
Alignment explanation
Indices: 4561692--4561750 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
4561682 CTATTTTTTC
* * * *
4561692 TCT TCT TCT TCT TAT TTT TCT CCT CCT T-T TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
4561739 TTT TC- TCT TCT T
1 TCT TCT TCT TCT T
4561751 AAACCCTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4561735 original size:23 final size:21
Alignment explanation
Indices: 4561697--4561750 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
4561687 TTTTCTCTTC
* *
4561697 TTCTTCTTATTTTTCTCCTCCTT
1 TTCTTCTTCTTCTTCT--TCCTT
*
4561720 TTCTTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTCCTT
4561741 TTC-TCTTCTT
1 TTCTTCTTCTT
4561751 AAACCCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.25
21 7 0.25
23 14 0.50
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTTCTTCTTCTTCTTCCTT
Found at i:4562462 original size:3 final size:3
Alignment explanation
Indices: 4562454--4562506 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
4562444 TCGTTTTTTC
* * * *
4562454 TCT TCT TCT TCT TAT TTT TCT CCT CCT T-T TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
4562501 TTT TCT
1 TCT TCT
4562507 CTTTTTAAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4563148 original size:762 final size:762
Alignment explanation
Indices: 4561685--4563973 Score: 4551
Period size: 762 Copynumber: 3.0 Consensus size: 762
4561675 CACATCTCTA
*
4561685 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTCT
1 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
4561750 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
66 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
*
4561815 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGCT
131 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
4561880 GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
196 GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
4561945 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
261 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
4562010 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
326 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
4562075 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
391 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
4562140 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
456 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
4562205 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
521 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
4562270 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
586 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
4562335 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
651 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
4562400 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
716 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
4562447 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
1 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
4562512 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
66 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
4562577 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
131 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
4562642 GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
196 GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
4562707 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
261 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
4562772 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
326 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
4562837 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
391 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
4562902 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
456 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
4562967 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
521 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
4563032 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
586 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
4563097 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
651 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
4563162 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
716 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
4563209 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
1 TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
4563274 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
66 TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
4563339 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
131 TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
*
4563404 GAGAGACTAAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
196 GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
4563469 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
261 GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
4563534 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
326 TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
4563599 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
391 TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
4563664 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
456 AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
4563729 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
521 GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
4563794 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
586 ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
4563859 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
651 AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
4563924 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
716 TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
4563971 TTT
1 TTT
4563974 AATAAAGATA
Statistics
Matches: 1524, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
762 1524 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (762 bp):
TTTTTTCTCTTCTTCTTCTTATTTTTCTCCTCCTTTTCTTCTTCTTCTTCTTCTTTTTCTCTTTT
TAAACCCTAAATTGGTGCTGATAGGGCTGTTAAATTGGTAATAACCAGCCACCTGGAGACCGTCA
TCTGCCATGTCATGTTGCCGTGACGTCTGTGATGAAAAGGACTGTTTTGTCACTTTTTCAAAGTT
GAGAGACTGAAATGAAATTAATGTGACTGTTTTGTCAGCTACCCCAAAGTTGAGTGACTGTTGGT
GTAATTTACCTTTTTTTTATTCATTCTCTTTGAATTTTTTAACGGAATCTATTAGTTTCAATTGA
TCTTCATAGACTTGTCTTGGTGTCAATGGAGCCAAAGTCAACATTTTTCCCGAGGTGTTTGAAGG
TGTAGCGATTTGTATAGCCACCATAGATAACTTTGTGATCAAATTGCCATGGACGCCCTAACAAC
AGATGATGGCATGCATGGGCACCACGTCATAAAGAACCTCATCAGTGTACTTGTCGATGGAAAAT
GAAACTAAAACTTGTTTGGTCACCTTCAATTCCCCACTGCCGTTGAGCCATTGAAGTTTGTAGGG
ATGAGGACGCTTAGTTGTTGGCAGACCGAGTTTTTCTATCATCAAAGTACTGGCTACGTTCATGC
AACTTCTGCCATCCACGATCAAATTACACACCTTGCCTTGGACATGGCAACGTGTATGGAAGATA
TTCTCTCCTTCCTGCTCATTCTCTATGCTTTGAAGGTTTAAACTTCG
Found at i:4563224 original size:3 final size:3
Alignment explanation
Indices: 4563216--4563268 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
4563206 TCGTTTTTTC
* * * *
4563216 TCT TCT TCT TCT TAT TTT TCT CCT CCT T-T TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
4563263 TTT TCT
1 TCT TCT
4563269 CTTTTTAAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4565772 original size:27 final size:26
Alignment explanation
Indices: 4565724--4565784 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
4565714 AGCAGCAACA
*
4565724 ATTAAATTTGTCCCTAAGCTAGACAC
1 ATTAAATTTGTCCCTAAACTAGACAC
4565750 ATTAAATTGATGT-CCTAAACTAGACAC
1 ATTAAATT--TGTCCCTAAACTAGACAC
4565777 ATTAAATT
1 ATTAAATT
4565785 AATTAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 8 0.25
27 21 0.66
28 3 0.09
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
ATTAAATTTGTCCCTAAACTAGACAC
Found at i:4569405 original size:10 final size:10
Alignment explanation
Indices: 4569390--4569419 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
4569380 CATGTGTTTT
4569390 AATTGTAATA
1 AATTGTAATA
4569400 AATTGTAATA
1 AATTGTAATA
4569410 AATTGATAAT
1 AATTG-TAAT
4569420 TTCATTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (10 bp):
AATTGTAATA
Found at i:4570535 original size:24 final size:24
Alignment explanation
Indices: 4570501--4570555 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4570491 ATATGTACAG
*
4570501 TCAGAAACAGATACAGTTTCAAAT
1 TCAGAAACAGATACAGATTCAAAT
* * *
4570525 TCAGAATCAGATTCAGATTCAGAT
1 TCAGAAACAGATACAGATTCAAAT
4570549 TACAGAA
1 T-CAGAA
4570556 GCAAATATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (24 bp):
TCAGAAACAGATACAGATTCAAAT
Found at i:4571010 original size:17 final size:17
Alignment explanation
Indices: 4570985--4571029 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4570975 CTTCATCGAT
* * *
4570985 CACATGACCTTGTCTTG
1 CACACGACCATGTCTCG
4571002 CACACGACCATGTCTCG
1 CACACGACCATGTCTCG
*
4571019 CACACGGCCAT
1 CACACGACCAT
4571030 CCGCACGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.22
Consensus pattern (17 bp):
CACACGACCATGTCTCG
Found at i:4574965 original size:19 final size:20
Alignment explanation
Indices: 4574938--4574980 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
4574928 CTCTTTTGCA
* *
4574938 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
*
4574958 TTCA-TCATATGTATTAAAT
1 TTCATTCATATGCATTAAAT
4574977 TTCA
1 TTCA
4574981 CGAAAAGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:4580822 original size:17 final size:18
Alignment explanation
Indices: 4580790--4580823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4580780 AACTTTGATT
4580790 TGAAGAAATAAGAAGAAG
1 TGAAGAAATAAGAAGAAG
*
4580808 TGAAGAAGT-AGAAGAA
1 TGAAGAAATAAGAAGAA
4580824 CAAAGGCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (18 bp):
TGAAGAAATAAGAAGAAG
Found at i:4585269 original size:18 final size:18
Alignment explanation
Indices: 4585238--4585272 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4585228 GCCATACCAG
*
4585238 CCTCAAATGCATCCTCCT
1 CCTCAAATACATCCTCCT
*
4585256 CCTCAAATATATCCTCC
1 CCTCAAATACATCCTCC
4585273 ACATCAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.43, G:0.03, T:0.29
Consensus pattern (18 bp):
CCTCAAATACATCCTCCT
Found at i:4589255 original size:44 final size:44
Alignment explanation
Indices: 4589199--4589307 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
4589189 GCAAATCTTG
* *
4589199 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGC-GAATCTCA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTCACAG-ATCTCA
* * * * * *
4589243 TCTCCTTGAAGTTATAGAGGAGTAGATTGAAGTTACAGATCTTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTCACAGATCTCA
4589287 TCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAAGTTACAGTGGA
4589308 ATATATAGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTCACAGATCTCA
Found at i:4591423 original size:46 final size:46
Alignment explanation
Indices: 4591373--4591548 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
4591363 TGTTTGGGCA
*
4591373 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
4591419 TCCGAACTCGTTGAGTTGAGTCCAAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* **
4591464 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
4591512 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4591549 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 62 0.57
47 26 0.24
48 2 0.02
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:4591528 original size:93 final size:93
Alignment explanation
Indices: 4591369--4591540 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
4591359 AGGATGTTTG
*
4591369 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
4591434 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * ** *
4591462 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
*
4591527 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
4591541 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:4594465 original size:12 final size:13
Alignment explanation
Indices: 4594435--4594462 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4594425 TGTAACAACA
4594435 AGGTTTTTTCTTT
1 AGGTTTTTTCTTT
4594448 AGGTTTTTTCTTT
1 AGGTTTTTTCTTT
4594461 AG
1 AG
4594463 TTTCATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.11, C:0.07, G:0.18, T:0.64
Consensus pattern (13 bp):
AGGTTTTTTCTTT
Found at i:4596758 original size:2 final size:2
Alignment explanation
Indices: 4596751--4596777 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4596741 TTCTAAAATT
4596751 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4596778 CATCCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4605269 original size:69 final size:69
Alignment explanation
Indices: 4605158--4605298 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 69
4605148 AATGATTTTT
4605158 AATTTGTTGTGTACTAATTGCGCAACAACTATAAAAATTTATTTAAACAACTATAAAATGTAGTT
1 AATTTGTTGTGTACTAATTGCGCAACAACTATAAAAATTTATTTAAACAACTATAAAATGTAGTT
4605223 GTCA
66 GTCA
*
4605227 AATTTGTTGTGTACTAATTGCGCAACAACTATAAAATTTTATTTAAACAACTATAAAATGTAGTT
1 AATTTGTTGTGTACTAATTGCGCAACAACTATAAAAATTTATTTAAACAACTATAAAATGTAGTT
4605292 GTCA
66 GTCA
4605296 AAT
1 AAT
4605299 ACTTTACGCA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (69 bp):
AATTTGTTGTGTACTAATTGCGCAACAACTATAAAAATTTATTTAAACAACTATAAAATGTAGTT
GTCA
Found at i:4606636 original size:18 final size:19
Alignment explanation
Indices: 4606601--4606641 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
4606591 ATTAAACAGT
4606601 TCGAGTTATTCGTGTTAA-
1 TCGAGTTATTCGTGTTAAC
4606619 TCGAGTTATTCG-GATTAAC
1 TCGAGTTATTCGTG-TTAAC
4606638 TCGA
1 TCGA
4606642 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (19 bp):
TCGAGTTATTCGTGTTAAC
Found at i:4607724 original size:54 final size:54
Alignment explanation
Indices: 4607661--4607765 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
4607651 TCCCTACTCA
*
4607661 TGGGAATAGAGTACATTTCATTATCAATCATTTACCTATTTGGAGAGCACTTAT
1 TGGGAATAGAGTACATTTCATGATCAATCATTTACCTATTTGGAGAGCACTTAT
*
4607715 TGGGAATAGAGTACATTTCATGATTAATCATTTACCTATTTGGAGAGCACT
1 TGGGAATAGAGTACATTTCATGATCAATCATTTACCTATTTGGAGAGCACT
4607766 CATGGTGAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGGAATAGAGTACATTTCATGATCAATCATTTACCTATTTGGAGAGCACTTAT
Found at i:4608621 original size:6 final size:6
Alignment explanation
Indices: 4608610--4608635 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4608600 CAACTACACT
4608610 GGTTGG GGTTGG GGTTGG GGTTGG GG
1 GGTTGG GGTTGG GGTTGG GGTTGG GG
4608636 CTCCTCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (6 bp):
GGTTGG
Found at i:4610099 original size:18 final size:17
Alignment explanation
Indices: 4610069--4610130 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
4610059 ATATTCGTCA
4610069 ATAAATAATTTAAAAATT
1 ATAAA-AATTTAAAAATT
*
4610087 ATAAAAATATTAAACAA-A
1 ATAAAAAT-TTAAA-AATT
*
4610105 ACTCAAAATTTAAGAAATT
1 A-TAAAAATTTAA-AAATT
4610124 ATAAAAA
1 ATAAAAA
4610131 AATCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 3 0.09
18 22 0.63
19 10 0.29
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:4610383 original size:30 final size:31
Alignment explanation
Indices: 4610349--4610411 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
4610339 TAGTAAAGGT
* *
4610349 AAAATTACACTTTGACCCTTT-AAAATTATA
1 AAAATTACAATTTAACCCTTTAAAAATTATA
* *
4610379 AAAATTTCAATTTAATCCTTTAAAAATTATA
1 AAAATTACAATTTAACCCTTTAAAAATTATA
4610410 AA
1 AA
4610412 GATATAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (31 bp):
AAAATTACAATTTAACCCTTTAAAAATTATA
Found at i:4610665 original size:22 final size:19
Alignment explanation
Indices: 4610636--4610686 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 19
4610626 ATTTTTCAAG
*
4610636 TTTTTATAATTTTGTATGATT
1 TTTTTATAAATTT-TAT-ATT
4610657 TTTCTTATAAATTTTATATT
1 TTT-TTATAAATTTTATATT
4610677 TTTTTATAAA
1 TTTTTATAAA
4610687 AAAAATTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.25
20 6 0.21
21 6 0.21
22 9 0.32
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTATAAATTTTATATT
Found at i:4619814 original size:20 final size:19
Alignment explanation
Indices: 4619774--4619814 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4619764 CTTTATATTG
* *
4619774 TTTTATTTTCAAAATGGTA
1 TTTTATTTTCAAAAAGATA
4619793 TTTTGATTTTCAAAAAGATA
1 TTTT-ATTTTCAAAAAGATA
4619813 TT
1 TT
4619815 CGATCGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTTATTTTCAAAAAGATA
Found at i:4620349 original size:12 final size:13
Alignment explanation
Indices: 4620334--4620364 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4620324 TGCAATTTGT
4620334 AATAAAA-ATGTA
1 AATAAAACATGTA
4620346 AATAAAACATGTA
1 AATAAAACATGTA
4620359 AATAAA
1 AATAAA
4620365 TAATAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (13 bp):
AATAAAACATGTA
Found at i:4620389 original size:3 final size:3
Alignment explanation
Indices: 4620363--4620419 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
4620353 CATGTAAATA
* * *
4620363 AAT AAT AAC AAT AAT GAT AGAT AAT AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
4620409 AAT AAT AAT AA
1 AAT AAT AAT AA
4620420 ATAAAAGCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4620739 original size:61 final size:60
Alignment explanation
Indices: 4620617--4620740 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 60
4620607 TGAAATTAAA
* *
4620617 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAATTGAGTTCAAAATAAAAATTAG
1 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAATAGAGTT-AAAACAAAAATTAG
* *
4620678 GGCCTAAATTATAATAAAATAAATGCCTAAAGGATTAAATCAGAAGTT-AAACAAAATTTAG
1 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAAT-AG-AGTTAAAACAAAAATTAG
4620739 GG
1 GG
4620741 GATAGATTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
61 52 0.91
62 1 0.02
63 4 0.07
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.26
Consensus pattern (60 bp):
GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAATAGAGTTAAAACAAAAATTAG
Found at i:4621661 original size:24 final size:25
Alignment explanation
Indices: 4621634--4621682 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4621624 TTTTTTTTAT
*
4621634 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
4621658 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
4621683 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:4621675 original size:25 final size:23
Alignment explanation
Indices: 4621646--4621710 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
4621636 AATAAAAAAC
*
4621646 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
4621671 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
4621692 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
4621711 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:4621705 original size:19 final size:20
Alignment explanation
Indices: 4621672--4621710 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4621662 TCAAATACAT
4621672 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
4621692 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
4621711 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:4623675 original size:16 final size:16
Alignment explanation
Indices: 4623651--4623693 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4623641 AAATGTCTTC
4623651 AACTCAAAATAACCTAA
1 AACT-AAAATAACCTAA
* *
4623668 AACTAAAATTACCTTA
1 AACTAAAATAACCTAA
4623684 AACTTAAAAT
1 AAC-TAAAAT
4623694 TTAATAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (16 bp):
AACTAAAATAACCTAA
Found at i:4627519 original size:13 final size:13
Alignment explanation
Indices: 4627501--4627526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4627491 GATTTATCAT
4627501 TCTCCTATTTGAA
1 TCTCCTATTTGAA
4627514 TCTCCTATTTGAA
1 TCTCCTATTTGAA
4627527 AGAAATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TCTCCTATTTGAA
Found at i:4627855 original size:14 final size:15
Alignment explanation
Indices: 4627831--4627860 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4627821 TGATTTAAAG
4627831 TTTTATAAAAAATAA
1 TTTTATAAAAAATAA
4627846 TTTT-TAAAAAATAA
1 TTTTATAAAAAATAA
4627860 T
1 T
4627861 AATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTATAAAAAATAA
Found at i:4630700 original size:14 final size:14
Alignment explanation
Indices: 4630681--4630707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4630671 TTCAATGTTT
4630681 TATATATATATGTA
1 TATATATATATGTA
4630695 TATATATATATGT
1 TATATATATATGT
4630708 TTGAAGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATATATATGTA
Found at i:4631111 original size:3 final size:3
Alignment explanation
Indices: 4631105--4631132 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4631095 GATTTCTTGA
4631105 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4631133 TTTTGACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4632687 original size:30 final size:30
Alignment explanation
Indices: 4632651--4632711 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4632641 ATGGTTGTAG
4632651 TTAGATTGCACATCCATTGTCTGTGTTTGT
1 TTAGATTGCACATCCATTGTCTGTGTTTGT
4632681 TTAGATTGCACATCCATTGTCTGTGTTTGT
1 TTAGATTGCACATCCATTGTCTGTGTTTGT
4632711 T
1 T
4632712 GCATGATTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (30 bp):
TTAGATTGCACATCCATTGTCTGTGTTTGT
Found at i:4636567 original size:2 final size:2
Alignment explanation
Indices: 4636560--4636598 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4636550 AATATGCTTT
* *
4636560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4636599 TTATGGCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:4636599 original size:10 final size:10
Alignment explanation
Indices: 4636558--4636602 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
4636548 GAAATATGCT
4636558 TTTATATATA
1 TTTATATATA
*
4636568 TATATATATA
1 TTTATATATA
*
4636578 TATATATATA
1 TTTATATATA
*
4636588 TTTATTTATA
1 TTTATATATA
4636598 TTTAT
1 TTTAT
4636603 GGCTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTATATATA
Found at i:4637008 original size:19 final size:19
Alignment explanation
Indices: 4636962--4637009 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4636952 GTATATATTT
4636962 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
4636980 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
4636999 TAAGTTTTATT
1 TAAATTTTATT
4637010 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:4637071 original size:43 final size:43
Alignment explanation
Indices: 4637023--4637114 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
4637013 ATTCTAGAAA
*
4637023 TATTTT-TATTTTATCTTTTAGTGGTTTACTAGAATAAGGGAAC
1 TATTTTGT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
4637066 TATTTTGTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTGTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
4637109 TATTTT
1 TATTTT
4637115 CCTAATTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.52
Consensus pattern (43 bp):
TATTTTGTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:4638162 original size:28 final size:28
Alignment explanation
Indices: 4638102--4638163 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
4638092 CTGATAAAGT
* *
4638102 ATATAATATATCTTTTACTATATATATAT
1 ATAT-ATATATCTTTTACTAAATATATAA
* * *
4638131 ATATATATATCTTTTATTAAATTTTTAA
1 ATATATATATCTTTTACTAAATATATAA
4638159 ATATA
1 ATATA
4638164 AACAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (28 bp):
ATATATATATCTTTTACTAAATATATAA
Found at i:4638187 original size:17 final size:18
Alignment explanation
Indices: 4638149--4638187 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4638139 ATCTTTTATT
* *
4638149 AAATTTTTAAATATAAAC
1 AAATTTTTAAATAGAAAA
4638167 AAATTTTT-AATAGAAAA
1 AAATTTTTAAATAGAAAA
4638184 AAAT
1 AAAT
4638188 GCCTCTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATTTTTAAATAGAAAA
Found at i:4639071 original size:6 final size:6
Alignment explanation
Indices: 4639060--4639085 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4639050 TATTTTCACC
4639060 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
4639086 GGGACCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:4639354 original size:16 final size:17
Alignment explanation
Indices: 4639309--4639356 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4639299 TATGACATAC
4639309 TTTATTACTACACTTAACA
1 TTTATTA-TACA-TTAACA
*
4639328 TTTATTAATACATTAA-T
1 TTTATT-ATACATTAACA
4639345 TTTATTATACAT
1 TTTATTATACAT
4639357 CTCCACGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 4 0.15
19 10 0.37
20 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTATACATTAACA
Found at i:4639402 original size:35 final size:35
Alignment explanation
Indices: 4639349--4639415 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
4639339 ATTAATTTTA
4639349 TTATACATCTCCACGATTTATATCCACATTTTGTG
1 TTATACATCTCCACGATTTATATCCACATTTTGTG
* * * * *
4639384 TTATACATTTCTATGATTTATATTCGCATTTT
1 TTATACATCTCCACGATTTATATCCACATTTT
4639416 ATGCGGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.49
Consensus pattern (35 bp):
TTATACATCTCCACGATTTATATCCACATTTTGTG
Found at i:4640760 original size:2 final size:2
Alignment explanation
Indices: 4640753--4640795 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4640743 TTAAGCACGA
4640753 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4640795 C
1 C
4640796 ATTGGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4641116 original size:24 final size:25
Alignment explanation
Indices: 4641044--4641104 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 25
4641034 GGTCATTATA
*
4641044 TTTTTTCATTT-TAAGCAATTTTAAT
1 TTTTTTC-TTTCTGAGCAATTTTAAT
4641069 TTTTTTCTTTCTGAGCAATTTTAAT
1 TTTTTTCTTTCTGAGCAATTTTAAT
4641094 TTTTTTCTTTC
1 TTTTTTCTTTC
4641105 ATGGTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTTTTCTTTCTGAGCAATTTTAAT
Found at i:4642881 original size:12 final size:13
Alignment explanation
Indices: 4642864--4642896 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
4642854 ACAAATATTA
4642864 AATTAT-TTATAT
1 AATTATATTATAT
4642876 AATTATATTATAT
1 AATTATATTATAT
4642889 -ATTATATT
1 AATTATATT
4642897 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTATATTATAT
Found at i:4642905 original size:26 final size:26
Alignment explanation
Indices: 4642867--4642923 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
4642857 AATATTAAAT
* *
4642867 TATTTATATAATTATATTATATATTA
1 TATTTTTAAAATTATATTATATATTA
* * *
4642893 TATTTTTAAAATTTTATTTTCTATTA
1 TATTTTTAAAATTATATTATATATTA
4642919 T-TTTT
1 TATTTT
4642924 AATGGTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTTTTAAAATTATATTATATATTA
Found at i:4645820 original size:46 final size:46
Alignment explanation
Indices: 4645748--4645840 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
4645738 CTATCCAAGC
*
4645748 CCTTTTTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
1 CCTTATTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
**
4645794 CCTTATTTTTTCCCTTTAATCCATGCTTTTTCCTAAGGTATTTCAA
1 CCTTATTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
4645840 C
1 C
4645841 TTTGCTGACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.19, C:0.26, G:0.04, T:0.51
Consensus pattern (46 bp):
CCTTATTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
Found at i:4652167 original size:28 final size:28
Alignment explanation
Indices: 4652135--4652188 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4652125 AAAAAATTAT
* *
4652135 AATCATATTTGTATTAAATAATAATGAA
1 AATCATATTTATATTAAATAACAATGAA
4652163 AATCATATTTATATTAAATAACAATG
1 AATCATATTTATATTAAATAACAATG
4652189 TTGAAAGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (28 bp):
AATCATATTTATATTAAATAACAATGAA
Found at i:4662877 original size:6 final size:6
Alignment explanation
Indices: 4662866--4662902 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
4662856 AAAATTCAGT
4662866 GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA G
1 GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA G
4662903 CAGGGTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:4668746 original size:23 final size:24
Alignment explanation
Indices: 4668699--4668746 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
4668689 GAACTACTTC
*
4668699 AAACTCGAAAAAATTGAAAACAAA
1 AAACTCGAAAAAATGGAAAACAAA
*
4668723 AAACT-GAAAAAATGGAGAA-AAA
1 AAACTCGAAAAAATGGAAAACAAA
4668745 AA
1 AA
4668747 TCCAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 12 0.55
24 5 0.23
ACGTcount: A:0.69, C:0.08, G:0.12, T:0.10
Consensus pattern (24 bp):
AAACTCGAAAAAATGGAAAACAAA
Found at i:4677246 original size:29 final size:29
Alignment explanation
Indices: 4677186--4677255 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
4677176 CACGATAATG
** *
4677186 TAAGTGACTAAAACGTAACATTTCAAACA
1 TAAGTGACTAAAACGTAACATGACAAAAA
* * *
4677215 TAAGTGACTAAAATGTAACCTGAGAAAAA
1 TAAGTGACTAAAACGTAACATGACAAAAA
4677244 TAAAAGTGACTA
1 T--AAGTGACTA
4677256 TTTTTATAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 24 0.73
31 9 0.27
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (29 bp):
TAAGTGACTAAAACGTAACATGACAAAAA
Found at i:4678917 original size:18 final size:18
Alignment explanation
Indices: 4678894--4678936 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4678884 GTTCAAGGTG
4678894 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4678912 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
4678930 TAATTAA
1 TAATTAA
4678937 AAACTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4679762 original size:24 final size:25
Alignment explanation
Indices: 4679732--4679785 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
4679722 GGTCTGGGAT
4679732 TTATTTAATATTAATAT-AATTATA
1 TTATTTAATATTAATATAAATTATA
*
4679756 TTATTTAATATTAATATAAATTTTA
1 TTATTTAATATTAATATAAATTATA
4679781 TTATT
1 TTATT
4679786 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTTAATATTAATATAAATTATA
Found at i:4679816 original size:18 final size:17
Alignment explanation
Indices: 4679789--4679823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4679779 TATTATTATA
4679789 TTTTTTTAGAAATATTT
1 TTTTTTTAGAAATATTT
*
4679806 TTTTATTTAGATATATTT
1 TTTT-TTTAGAAATATTT
4679824 GAATTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTTTTAGAAATATTT
Found at i:4682318 original size:17 final size:17
Alignment explanation
Indices: 4682296--4682342 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
4682286 ATAAAAGGGT
4682296 TTGTTTTAATTAACTAA
1 TTGTTTTAATTAACTAA
* * *
4682313 TTGTTTAAACTAATTAA
1 TTGTTTTAATTAACTAA
*
4682330 TTGATTTAATTAA
1 TTGTTTTAATTAA
4682343 AGCAAAGAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGTTTTAATTAACTAA
Found at i:4686780 original size:3 final size:3
Alignment explanation
Indices: 4686774--4686840 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
4686764 AAATCTAAGA
* * *
4686774 TAT TAT TAT TAT TAAT TAT TAG TA- TAG TCT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4686818 TAC TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
4686841 ATTTTAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 48 0.87
4 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4702585 original size:28 final size:28
Alignment explanation
Indices: 4702554--4702643 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
4702544 TTTATTTTAG
*
4702554 ATTAATTAAATATTCATATTTCATAATA
1 ATTAATTAAATATTCATATTTTATAATA
* *
4702582 ATT-ATATAAATAATTAATTAATTTTATATTA
1 ATTAAT-TAAAT-ATTCA-T-ATTTTATAATA
* *
4702613 ATTAAATAAATAATCATATTTTATAATA
1 ATTAATTAAATATTCATATTTTATAATA
4702641 ATT
1 ATT
4702644 TTATGAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 2 0.04
28 21 0.42
29 5 0.10
30 4 0.08
31 17 0.34
32 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTAATTAAATATTCATATTTTATAATA
Found at i:4702630 original size:59 final size:59
Alignment explanation
Indices: 4702512--4703332 Score: 1073
Period size: 59 Copynumber: 14.3 Consensus size: 59
4702502 AAAAGATGGG
*
4702512 TCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAATTAAAT--AT--
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4702567 TCATATTTCATAATAATTATATAAATAATTAATTAATTTTATATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * * *
4702626 TCATATTTTATAATAATTTTATGAATAATTAATTAATTTTTGACTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4702685 TCATATTTCACAAAAAATT-TATGAATAATTAATTTATTTTTGATTAATTAGATAAATAA
1 TCATATTTCA-TAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4702744 TCATATTTCATAATAATTCTATGAATAATTAATTCATTTTAGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4702803 TCATATTTCATAATAATTTTATCAATAATT-ATTTATTTTAGATTAATTAAATAAATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4702861 TCATATTTCATAATAATTATACGAATAATTAATTAATTTTAAATTAAATAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4702920 TCATATTTTATAATAATTTTATGAATAACTAATTTATTTTAG----ATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
*
4702975 TCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAATTAAAT--AT--
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4703030 TTATATTTC---ATAA-TA-AT---TAATTAA--T-TTTCA-ATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4703077 TCATATTTTATAATAATTTTATGAATAATTAATTTATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4703136 CCATATTTCATAATAATTCTATGAATAACTAATTTATTTTCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4703195 TCATATTTTATAATAATTATAGGAATAATTAATTAATTTTAGATTAATTAATTAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4703254 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
*
4703313 TCATATTTCATAATGATTAT
1 TCATATTTCATAATAATTAT
4703333 CATAACTTAC
Statistics
Matches: 668, Mismatches: 71, Indels: 50
0.85 0.09 0.06
Matches are distributed among these distances:
43 11 0.02
44 4 0.01
45 3 0.00
47 14 0.02
50 6 0.01
51 2 0.00
52 6 0.01
55 115 0.17
57 5 0.01
58 62 0.09
59 434 0.65
60 6 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (59 bp):
TCATATTTCATAATAATTATATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
Found at i:4702673 original size:19 final size:20
Alignment explanation
Indices: 4702639--4702676 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4702629 TATTTTATAA
4702639 TAATTTTATGAATAATTAAT
1 TAATTTTATGAATAATTAAT
*
4702659 TAATTTT-TGACTAATTAA
1 TAATTTTATGAATAATTAA
4702677 ATAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TAATTTTATGAATAATTAAT
Found at i:4703231 original size:23 final size:21
Alignment explanation
Indices: 4703205--4703254 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 21
4703195 TCATATTTTA
4703205 TAATAATTATAGGAATAATTAAT
1 TAATAATT-TA-GAATAATTAAT
*
4703228 TAAT--TTTAGATTAATTAAT
1 TAATAATTTAGAATAATTAAT
4703247 TAAATAAT
1 T-AATAAT
4703255 CATATTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 11 0.48
20 5 0.22
21 2 0.09
22 1 0.04
23 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (21 bp):
TAATAATTTAGAATAATTAAT
Found at i:4716387 original size:28 final size:29
Alignment explanation
Indices: 4716320--4716406 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
4716310 AGCAATCCCG
*
4716320 AAAATCTTCAAAATCAAAAACCCTAAACA
1 AAAATCTCCAAAATCAAAAACCCTAAACA
* * * *
4716349 AAAATCCCCAAAATC-AAAACCCTTACCC
1 AAAATCTCCAAAATCAAAAACCCTAAACA
* ** *
4716377 AAAATCTCCAAATTTGACAACCCTAAACA
1 AAAATCTCCAAAATCAAAAACCCTAAACA
4716406 A
1 A
4716407 TTTATGACGA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (29 bp):
AAAATCTCCAAAATCAAAAACCCTAAACA
Found at i:4716809 original size:29 final size:29
Alignment explanation
Indices: 4716767--4716822 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
4716757 AACATTCTAT
4716767 TTTAATAATTTTATATTTCAAAAAAATAA
1 TTTAATAATTTTATATTTCAAAAAAATAA
4716796 TTTAATAATTTTATATTTCAAAAAAAT
1 TTTAATAATTTTATATTTCAAAAAAAT
4716823 TAATAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TTTAATAATTTTATATTTCAAAAAAATAA
Found at i:4722300 original size:19 final size:18
Alignment explanation
Indices: 4722261--4722297 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4722251 AAAAAGAACG
4722261 ATAAAACCCTCCACATCA
1 ATAAAACCCTCCACATCA
4722279 ATAAAACCC-CTCACATCA
1 ATAAAACCCTC-CACATCA
4722297 A
1 A
4722298 ATATTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAACCCTCCACATCA
Found at i:4725422 original size:6 final size:6
Alignment explanation
Indices: 4725408--4725445 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
4725398 AAAACAAAAT
* *
4725408 AAAAGA AATAGA AATAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
4725446 CAAAGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:4726160 original size:100 final size:100
Alignment explanation
Indices: 4725987--4726187 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 100
4725977 GCTAACATTG
*
4725987 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCAACGAGGAATAGCTCGAAATTTTTGGT
1 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCAACGAGGAATAGCTCGAAATTTCTGGT
4726052 TTGTATTTCTAAAATCTGAATCTAGTTATTAATTA
66 TTGTATTTCTAAAATCTGAATCTAGTTATTAATTA
*
4726087 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCGAAATTTCTGGT
1 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCAACGAGGAATAGCTCGAAATTTCTGGT
*
4726152 TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
66 TTGTATTTCTAAAATCTGAATCTAGTTATTAATTA
4726187 T
1 T
4726188 TAAATTTTGA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (100 bp):
TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCAACGAGGAATAGCTCGAAATTTCTGGT
TTGTATTTCTAAAATCTGAATCTAGTTATTAATTA
Found at i:4730806 original size:25 final size:23
Alignment explanation
Indices: 4730777--4730841 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
4730767 AATAAAAAAC
*
4730777 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
4730802 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
4730823 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
4730842 AATAATGGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.29
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:4730834 original size:19 final size:20
Alignment explanation
Indices: 4730803--4730841 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4730793 TCAAATACAT
4730803 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAATAAATA
4730823 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAATAAATA
4730842 AATAATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TTAAAACATAAAAATAAATA
Found at i:4731410 original size:24 final size:25
Alignment explanation
Indices: 4731383--4731438 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
4731373 CTTTTTTTAT
*
4731383 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
4731407 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
4731432 -AAATAAA
1 TAAATAAA
4731439 TATTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:4731424 original size:25 final size:23
Alignment explanation
Indices: 4731395--4731459 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
4731385 AATAAAAAAC
*
4731395 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
4731420 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
4731441 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
4731460 AATAATGGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.29
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:4731452 original size:19 final size:20
Alignment explanation
Indices: 4731421--4731459 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4731411 TCAAATACAT
4731421 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAATAAATA
4731441 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAATAAATA
4731460 AATAATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TTAAAACATAAAAATAAATA
Found at i:4732945 original size:27 final size:27
Alignment explanation
Indices: 4732907--4732962 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4732897 AGATACCAAG
4732907 GTGCTATTTGATAAACTAAAAAATTAA
1 GTGCTATTTGATAAACTAAAAAATTAA
4732934 GTGCTATTTGATAAACTAAAAAATTAA
1 GTGCTATTTGATAAACTAAAAAATTAA
4732961 GT
1 GT
4732963 ACCAAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (27 bp):
GTGCTATTTGATAAACTAAAAAATTAA
Found at i:4739663 original size:14 final size:12
Alignment explanation
Indices: 4739642--4739682 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
4739632 AAACATTTTA
4739642 TTTTTTTTATTT
1 TTTTTTTTATTT
4739654 TCTTTGTTTTATTT
1 T-TTT-TTTTATTT
*
4739668 TTATTTTTATTT
1 TTTTTTTTATTT
4739680 TTT
1 TTT
4739683 GCAGGTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:4742414 original size:28 final size:29
Alignment explanation
Indices: 4742360--4742418 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
4742350 GGAAGTCTGA
*
4742360 TTTTTTAACATGAGGGTTTCAGTGTTAAT
1 TTTTTTAACATGAGGGTTTCAGAGTTAAT
* *
4742389 TTTTTTATCATTAGGGTTT-AGAGTTAAT
1 TTTTTTAACATGAGGGTTTCAGAGTTAAT
4742417 TT
1 TT
4742419 AATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.53
Consensus pattern (29 bp):
TTTTTTAACATGAGGGTTTCAGAGTTAAT
Found at i:4744938 original size:19 final size:17
Alignment explanation
Indices: 4744914--4744948 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
4744904 GATTTAGATA
4744914 TATATTAAATTATTTTTAT
1 TATATT-AATT-TTTTTAT
4744933 TATATTAATTTTTTTA
1 TATATTAATTTTTTTA
4744949 CTTGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATTAATTTTTTTAT
Found at i:4750622 original size:13 final size:14
Alignment explanation
Indices: 4750604--4750632 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4750594 TTTAAATTTT
4750604 TATATAAAAA-TAA
1 TATATAAAAAGTAA
4750617 TATATAAAAAGTAA
1 TATATAAAAAGTAA
4750631 TA
1 TA
4750633 CGAACGGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TATATAAAAAGTAA
Found at i:4751406 original size:33 final size:33
Alignment explanation
Indices: 4751369--4751445 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
4751359 AGTCTGTTGG
* *
4751369 TAAGTGGCACGCCCAAGTTCTTTCGTCTGCAGA
1 TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
* * *
4751402 TAAGTAGCACGCCCAAGTTCTATCGTTTGCCCA
1 TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
*
4751435 TAAGTGACACG
1 TAAGTGGCACG
4751446 TTTTGAAGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (33 bp):
TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
Found at i:4756628 original size:15 final size:13
Alignment explanation
Indices: 4756610--4756644 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 13
4756600 AGGTTCTATG
4756610 AAAAAATAGTTTTTT
1 AAAAAATA--TTTTT
4756625 AAAAAATATTTTT
1 AAAAAATATTTTT
4756638 AAAAAAT
1 AAAAAAT
4756645 TTGATTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:4760226 original size:27 final size:25
Alignment explanation
Indices: 4760196--4760256 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
4760186 GAAAAAGGAG
*
4760196 GAGAAGATGGAAGGGAAGAAGAAAAAA
1 GAGAAGATGGAA--AAAGAAGAAAAAA
4760223 GAGAAGAT-GAAAAAGAAGAAAAAA
1 GAGAAGATGGAAAAAGAAGAAAAAA
4760247 GA-AAGGATGG
1 GAGAA-GATGG
4760257 TGACAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 1 0.03
26 3 0.10
27 8 0.26
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (25 bp):
GAGAAGATGGAAAAAGAAGAAAAAA
Found at i:4768096 original size:162 final size:168
Alignment explanation
Indices: 4767807--4768245 Score: 516
Period size: 162 Copynumber: 2.6 Consensus size: 168
4767797 GAACAATCTG
* * * * *
4767807 AATCAATTACATCATCTGCTTCACAATCTT-AAGTTCAAGAGATTCATAACAAAACCAAAGCAAC
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAA-TAAACCAAAGCAAT
* * * * * *
4767871 CGGTTAATGAATTCTCTGAGGTTTATTTCCATTAG-AGATGCGATAATTAAAACTCCTGATAAAT
65 CGGTTAATGAATTCTCGGAAGTTCATTTCAATT-GTAGATGCGATAAATAAAACTCCGGATAAAT
* *
4767935 TGAAATAAACAAAGCTTTACCTGCACATAATT-C-AA-T-
129 TGAAATAAACAAAGCTTCACCAGCACATAATTACGAATTA
* *
4767971 AA-CAATTACATTATCTGTTTAACAATCTTAAAGTTCAA-CGATTCATAATAAACCAAAGGAATC
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATC
* * *
4768034 GGTTTATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGTTAAATACAACTCCGGATAAATTG
66 GGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGATAAATAAAACTCCGGATAAATTG
4768099 AAATAAACAAAGCTTCACCAGCACATAATTCAACAGGAATTCA
131 AAATAAACAAAGCTTCACCAGCACATAATT--AC--GAATT-A
* ** * * *
4768142 AATAAATTACATTATCCATTTCACAATCTTAAAGTTTAAGCGGTTCATAATAAATCAAAAGCAAT
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAA-CCAAAGCAAT
* *
4768207 CGGTTCATGATTTCTCGGAAGTTCATTTCAATTGTAGAT
65 CGGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGAT
4768246 TCCAAATTTT
Statistics
Matches: 233, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
161 1 0.00
162 94 0.40
163 33 0.14
164 10 0.04
165 1 0.00
168 2 0.01
169 1 0.00
171 2 0.01
172 31 0.13
173 13 0.06
174 45 0.19
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (168 bp):
AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATC
GGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGATAAATAAAACTCCGGATAAATTG
AAATAAACAAAGCTTCACCAGCACATAATTACGAATTA
Found at i:4778893 original size:45 final size:45
Alignment explanation
Indices: 4778839--4779001 Score: 184
Period size: 45 Copynumber: 3.6 Consensus size: 45
4778829 AAGGATACTA
4778839 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
** * * ** *
4778884 TGTAAGACCATGTCAAGACATGGCATCAGCATTGATTAAGGA-CTCCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTA-AG-GCAAGGATC-CCG
**
4778931 TGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
* * *
4778976 TGTAAGACAATTTGAAGACATGGCAT
1 TGTAAGACCATGTCAAGACATGGCAT
4779002 CGGCATTGAT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
45 57 0.61
46 4 0.04
47 33 0.35
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (45 bp):
TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
Found at i:4778947 original size:47 final size:47
Alignment explanation
Indices: 4778884--4779040 Score: 167
Period size: 47 Copynumber: 3.4 Consensus size: 47
4778874 AAGGATCCCG
** *
4778884 TGTAAGACCATGTCAAGACATGGCATCAGCATTGATTAAGGACTCCA
1 TGTAAGACCACATCAAGACATGGCATCGGCATTGATTAAGGACTCCA
* * * ** *
4778931 TGTAAGACCACATCAAGACATGGCATTGGTA-AG-GCAAGGA-TCCCG
1 TGTAAGACCACATCAAGACATGGCATCGGCATTGATTAAGGACT-CCA
* ** *
4778976 TGTAAGACAATTTGAAGACATGGCATCGGCATTGATTAAGGACTCCA
1 TGTAAGACCACATCAAGACATGGCATCGGCATTGATTAAGGACTCCA
4779023 TGTAAGACCACATCAAGA
1 TGTAAGACCACATCAAGA
4779041 TGTAGCATTG
Statistics
Matches: 83, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
44 1 0.01
45 32 0.39
46 2 0.02
47 47 0.57
48 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (47 bp):
TGTAAGACCACATCAAGACATGGCATCGGCATTGATTAAGGACTCCA
Found at i:4779051 original size:92 final size:92
Alignment explanation
Indices: 4778838--4779040 Score: 352
Period size: 92 Copynumber: 2.2 Consensus size: 92
4778828 TAAGGATACT
** *
4778838 ATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
1 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACAATGTCAAGAC
4778903 ATGGCATCAGCATTGATTAAGGACTCC
66 ATGGCATCAGCATTGATTAAGGACTCC
* *
4778930 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACAATTTGAAGAC
1 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACAATGTCAAGAC
*
4778995 ATGGCATCGGCATTGATTAAGGACTCC
66 ATGGCATCAGCATTGATTAAGGACTCC
4779022 ATGTAAGACCACATCAAGA
1 ATGTAAGACCACATCAAGA
4779041 TGTAGCATTG
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 105 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (92 bp):
ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACAATGTCAAGAC
ATGGCATCAGCATTGATTAAGGACTCC
Found at i:4779114 original size:47 final size:47
Alignment explanation
Indices: 4779055--4779177 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
4779045 GCATTGGCAC
*
4779055 TAAGACAAGAATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGAATACCATGTAAGACCATGCTTGGAACATGGCATTTGG
* *
4779102 TAAGACAAGAATACCAGGTAATACCATGCTTGGAACATGGCATTTGG
1 TAAGACAAGAATACCATGTAAGACCATGCTTGGAACATGGCATTTGG
* * *
4779149 TAAGATAAGGATATCATGTAAGACCATGC
1 TAAGACAAGAATACCATGTAAGACCATGC
4779178 CAATGCATGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (47 bp):
TAAGACAAGAATACCATGTAAGACCATGCTTGGAACATGGCATTTGG
Found at i:4779284 original size:55 final size:54
Alignment explanation
Indices: 4779163--4779348 Score: 173
Period size: 55 Copynumber: 3.4 Consensus size: 54
4779153 ATAAGGATAT
* * * * ** *
4779163 CATGTAAGACCATGCCAATG-CATGCCATTGATAAGTTTTATAAGGCAATGAAAT
1 CATGTAAGACCATGCCAA-GACATGACATTGATGAGTTCTATAAGGCAAAGGTAC
* *
4779217 CATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGACATTGATGAGTT-CTATAAGGCAAAGGTAC
* * *
4779272 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAAGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGACATTGA-TGAGTTCTATAAGGCAAAGG-TAC
* * *
4779325 CACGTAAGACAATGTCAAGACATG
1 CATGTAAGACCATGCCAAGACATG
4779349 GCAATGGTAA
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.04
53 29 0.26
54 34 0.31
55 43 0.39
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGACATTGATGAGTTCTATAAGGCAAAGGTAC
Found at i:4779362 original size:53 final size:53
Alignment explanation
Indices: 4779220--4779367 Score: 156
Period size: 53 Copynumber: 2.8 Consensus size: 53
4779210 ATGAAATCAT
* * * * *
4779220 GTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCAT
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAAGCAAAGGTACCAC
* * *
4779275 GTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAAGC-AAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAGCAAAGG-TACCAC
* * *
4779328 GTAAGACAATGTCAAGACATGGCAATGGTAAGTTCA-AAAG
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAG
4779368 AAAAAGGTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
52 8 0.10
53 40 0.51
54 1 0.01
55 29 0.37
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAGCAAAGGTACCAC
Found at i:4782724 original size:27 final size:27
Alignment explanation
Indices: 4782679--4782736 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
4782669 AGTTGCACCG
* *
4782679 GCGATGGCACCGTCAGGCATGGAGGCT
1 GCGATGGCACCGTCAGGCACGGAGACT
* *
4782706 GCGATGGCACTGTCGGGCACGGAGACT
1 GCGATGGCACCGTCAGGCACGGAGACT
4782733 GCGA
1 GCGA
4782737 CAATAGCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.41, T:0.14
Consensus pattern (27 bp):
GCGATGGCACCGTCAGGCACGGAGACT
Found at i:4782907 original size:31 final size:30
Alignment explanation
Indices: 4782866--4783033 Score: 110
Period size: 31 Copynumber: 5.5 Consensus size: 30
4782856 CTAAAGATGA
*
4782866 TATTATTTTAATATTTATCTAAATAGTATTT
1 TATTAATTTAATATTTATCTAAATA-TATTT
* * * *
4782897 TATTAATTTAATATTAATAT-GAGATATTT
1 TATTAATTTAATATTTATCTAAATATATTT
* * * *
4782926 AATTTAATTTAACATTTATCTAGATAATGTTT
1 TA-TTAATTTAATATTTATCTAAAT-ATATTT
* * **
4782958 TATTAATTTAA-AATTAACATAAGATATCA-AA
1 TATTAATTTAATATTTATC-TAA-ATAT-ATTT
* *
4782989 T-TTAACTTAATATTTATCTAGATTATATTT
1 TATTAATTTAATATTTATCTA-AATATATTT
4783019 TATTAATTTAATATT
1 TATTAATTTAATATT
4783034 AATGTGATTA
Statistics
Matches: 102, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
29 7 0.07
30 36 0.35
31 51 0.50
32 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATTAATTTAATATTTATCTAAATATATTT
Found at i:4782943 original size:61 final size:60
Alignment explanation
Indices: 4782872--4783036 Score: 213
Period size: 61 Copynumber: 2.7 Consensus size: 60
4782862 ATGATATTAT
* **
4782872 TTTAATATTTATCTAAATAGTATTTTATTAATTTAATATTAATATGAGATATTTAATTTAA
1 TTTAATATTTATCTAAATA-TATTTTATTAATTTAATATTAATATAAGATATCAAATTTAA
* * * * *
4782933 TTTAACATTTATCTAGATAATGTTTTATTAATTTAAAATTAACATAAGATATCAAATTTAA
1 TTTAATATTTATCTAAAT-ATATTTTATTAATTTAATATTAATATAAGATATCAAATTTAA
* *
4782994 CTTAATATTTATCTAGATTATATTTTATTAATTTAATATTAAT
1 TTTAATATTTATCTA-AATATATTTTATTAATTTAATATTAAT
4783037 GTGATTAATT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
61 85 0.98
62 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (60 bp):
TTTAATATTTATCTAAATATATTTTATTAATTTAATATTAATATAAGATATCAAATTTAA
Found at i:4786241 original size:21 final size:21
Alignment explanation
Indices: 4786202--4786242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4786192 GACTAAACCG
*
4786202 AAAACTCAAAGAATTTTTCAC
1 AAAACTCAAAGAAATTTTCAC
4786223 AAAATCTCAAA-AAATTTTCA
1 AAAA-CTCAAAGAAATTTTCA
4786243 AGGTACAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAACTCAAAGAAATTTTCAC
Found at i:4787532 original size:24 final size:23
Alignment explanation
Indices: 4787505--4787555 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4787495 GTATCAGAAA
* *
4787505 GCTCAAGAGAGATTATATCGGGAT
1 GCTCAAGAGAG-TTATAACAGGAT
* *
4787529 GCTCATGTGAGTTATAACAGGAT
1 GCTCAAGAGAGTTATAACAGGAT
4787552 GCTC
1 GCTC
4787556 TTGCGAGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (23 bp):
GCTCAAGAGAGTTATAACAGGAT
Found at i:4787722 original size:24 final size:24
Alignment explanation
Indices: 4787686--4787748 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 24
4787676 GATTTATTTT
* *
4787686 CATACTTAAAAATTATA-CAAATCA
1 CATACATATAAATTA-AGCAAATCA
* *
4787710 CATACATATAAATCAAGCATATCA
1 CATACATATAAATTAAGCAAATCA
*
4787734 CATAAATATACAATT
1 CATACATATA-AATT
4787749 TAGTTGCACA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.87
25 3 0.10
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (24 bp):
CATACATATAAATTAAGCAAATCA
Found at i:4788334 original size:16 final size:16
Alignment explanation
Indices: 4788313--4788344 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4788303 AACGGGACAA
4788313 GAAAACATACCTAATT
1 GAAAACATACCTAATT
4788329 GAAAACATACCTAATT
1 GAAAACATACCTAATT
4788345 AAGCCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
GAAAACATACCTAATT
Found at i:4813652 original size:27 final size:27
Alignment explanation
Indices: 4813622--4813689 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
4813612 CTACCATTTA
*
4813622 CGCCTCTGAGATAGGCACAATTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
* * *
4813649 CGCCTCTGAGAAAAGCTCAACTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
4813676 CGCCTCTGAGATAG
1 CGCCTCTGAGATAG
4813690 ACGCAACCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (27 bp):
CGCCTCTGAGATAGGCACAACTAGTCG
Found at i:4813790 original size:27 final size:28
Alignment explanation
Indices: 4813733--4813795 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
4813723 TACTGATCCG
*
4813733 AAAAT-AAAAAATAATATTTTATTTTAA
1 AAAATAAAAAAATAATATTTTATTATAA
*
4813760 AAAATAAAAAAAT-ATATTTT-TTAATAT
1 AAAATAAAAAAATAATATTTTATT-ATAA
4813787 AAAATAAAA
1 AAAATAAAA
4813796 GAGTCGCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 23 0.72
28 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATAAAAAAATAATATTTTATTATAA
Found at i:4820873 original size:28 final size:28
Alignment explanation
Indices: 4820841--4820898 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
4820831 GTTTTGGTCC
4820841 TTTTACTCTATCCCTCAAAATGGTAAGT
1 TTTTACTCTATCCCTCAAAATGGTAAGT
*
4820869 TTTTACTCTATCCCTCCAAATGGTAAGT
1 TTTTACTCTATCCCTCAAAATGGTAAGT
4820897 TT
1 TT
4820899 GTACATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (28 bp):
TTTTACTCTATCCCTCAAAATGGTAAGT
Found at i:4821440 original size:14 final size:14
Alignment explanation
Indices: 4821421--4821447 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4821411 AAACCATAAA
4821421 CTTGAATCCTGAAT
1 CTTGAATCCTGAAT
4821435 CTTGAATCCTGAA
1 CTTGAATCCTGAA
4821448 CCAAGACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (14 bp):
CTTGAATCCTGAAT
Found at i:4825541 original size:21 final size:21
Alignment explanation
Indices: 4825515--4825555 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4825505 AGACGAGCAA
* *
4825515 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4825536 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4825556 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4828741 original size:22 final size:22
Alignment explanation
Indices: 4828716--4828764 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4828706 TTTTCTTGTT
*
4828716 ATTTT-CTACCTATTTTGCTACA
1 ATTTTACTA-CTATCTTGCTACA
* *
4828738 ATTTTACTATTATCTTGCTACT
1 ATTTTACTACTATCTTGCTACA
4828760 ATTTT
1 ATTTT
4828765 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTTACTACTATCTTGCTACA
Found at i:4829018 original size:12 final size:12
Alignment explanation
Indices: 4828988--4829020 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4828978 TATATATTTT
4828988 AAAATT-ATATA
1 AAAATTAATATA
4828999 AAAA-TAATATA
1 AAAATTAATATA
4829010 AAAATTAATAT
1 AAAATTAATAT
4829021 GATCAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4831078 original size:40 final size:39
Alignment explanation
Indices: 4831028--4831184 Score: 156
Period size: 39 Copynumber: 4.0 Consensus size: 39
4831018 CAAATCCAAT
* *
4831028 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAA
* * *
4831068 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCTGAATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAA
* * * **
4831107 CACCAGCACGAATGCCTTCGGGGCTTAATCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
* * *
4831146 CACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
4831185 TTCTCCATTA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 65 0.66
40 34 0.34
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
Found at i:4831712 original size:110 final size:110
Alignment explanation
Indices: 4831519--4831738 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
4831509 TGTGGATAGG
4831519 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
4831584 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
4831629 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTTGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
4831694 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
4831739 AATAGTCACA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:4834881 original size:137 final size:137
Alignment explanation
Indices: 4834722--4835569 Score: 1435
Period size: 137 Copynumber: 6.2 Consensus size: 137
4834712 AGATTAAAGT
*
4834722 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAGATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
*
4834787 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
4834852 AGATCAA
131 AGATCAA
* *
4834859 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGTGTAGACTAAAGATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* *
4834924 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTTTCTGAAGTTGCAGTAAAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
4834989 AGATCAA
131 AGATCAA
* * * * *
4834996 TACAAGTCTTATCTCTCTGAACTTGCAGTGGAGTAGACTAAAGATAGCAAATCTTATTTCCCTAA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
4835061 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
*
4835126 AAATCAA
131 AGATCAA
* *
4835133 CACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATAGCAAATTTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
*
4835198 AGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
4835263 AGATCAA
131 AGATCAA
* * * *
4835270 CACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTAAAGATAGTAAATCTTATTTCCCTAA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* *
4835335 AGTTGCAGTGGAATAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCATTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
4835400 AGATCAA
131 AGATCAA
*
4835407 CACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* *
4835472 AGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTAAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
4835537 AGATCAA
131 AGATCAA
* * * * *
4835544 AACAAGCCCTATTTCCTTGAAGTTGC
1 CACAAGTCTTATCTCCCTGAAGTTGC
4835570 GGCGAACCGA
Statistics
Matches: 664, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 664 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (137 bp):
CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
AGATCAA
Found at i:4835162 original size:92 final size:93
Alignment explanation
Indices: 4834724--4835480 Score: 321
Period size: 92 Copynumber: 8.3 Consensus size: 93
4834714 ATTAAAGTCA
* * * * * * * *
4834724 CAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAGATAGCAAATCTTATTTCCCTGAA
1 CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAAT-CAGACAGCAAGTCTTATCTCCCTAAA
*
4834788 GTTGCAGTGGAACAGATTGAAGCTATAAAC
65 GTTGCAGTGGAGCAGATTGAAGC-ATAAAC
* * *
4834818 CACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAG-ATCA-ACA-CAAGTCTTATCTCCCTGAA
1 CA-AGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAATCAGACAGCAAGTCTTATCTCCCTAAA
* * * * *
4834880 GTTGCAGTGGTGTAGACTAAAG-AT--AG
65 GTTGCAGTGGAGCAGATTGAAGCATAAAC
* * * * * * * * * *
4834906 CAA-ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTT
1 CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGC--A--GAATC-AGACAGCA-AG-TCTTATCTC
* * ** *
4834970 TCTGAAGTTGCAGTAAAGCAGA-T----CA-ATA-
59 CCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAAC
* * * * * * * * * *
4834998 CAAG-TCTTATCTCTCTGAACTTGCAGTGGAGTAGACTAAAGATAGCAAATCTTATTTCCCTAAA
1 CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAAT-CAGACAGCAAGTCTTATCTCCCTAAA
*
4835062 GTTGCAGTGGAACAGATTGAAGCTATAAAC
65 GTTGCAGTGGAGCAGATTGAAGC-ATAAAC
* *
4835092 CACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCA-AATCA-ACA-CAAGTCTTATCTCCCTGAA
1 CA-AGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAATCAGACAGCAAGTCTTATCTCCCTAAA
* * * *
4835154 GTTACAGTGGAGCAGACTAAAG-AT--AG
65 GTTGCAGTGGAGCAGATTGAAGCATAAAC
* * * * * * * * * *
4835180 CAA-ATTTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTC
1 CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGC--A--GAATC-AGACAGCA-AG-TCTTATCTC
* * * *
4835244 TCTGAAGTTGCAGTAGAGCAGA-T----CA-ACA-
59 CCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAAC
* ** * * * * *
4835272 CAAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTAAAGATAGTAAATCTTATTTCCCTAAA
1 CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAAT-CAGACAGCAAGTCTTATCTCCCTAAA
**
4835336 GTTGCAGTGGAATAGATTGAAGCTATAAAC
65 GTTGCAGTGGAGCAGATTGAAGC-ATAAAC
* *
4835366 CACAGATCTCATCTCTCTGAAGTTGCATTAGAGCAG-ATCA-ACA-CAAGTCTTATCTCCCTAAA
1 CA-AGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAATCAGACAGCAAGTCTTATCTCCCTAAA
* * *
4835428 GTTGCAGTGGAGCAGACTAAAG-AT--AG
65 GTTGCAGTGGAGCAGATTGAAGCATAAAC
* *
4835454 CAA-ATCTTATTTCCCTGAAGTTGCAGT
1 CAAGATCTCATCTCCCTGAAGTTGCAGT
4835481 GGAACAGATT
Statistics
Matches: 494, Mismatches: 117, Indels: 112
0.68 0.16 0.15
Matches are distributed among these distances:
86 113 0.23
87 7 0.01
88 23 0.05
90 9 0.02
91 7 0.01
92 161 0.33
93 16 0.03
94 13 0.03
95 16 0.03
96 129 0.26
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (93 bp):
CAAGATCTCATCTCCCTGAAGTTGCAGTAGAGCAGAATCAGACAGCAAGTCTTATCTCCCTAAAG
TTGCAGTGGAGCAGATTGAAGCATAAAC
Found at i:4837745 original size:40 final size:40
Alignment explanation
Indices: 4837701--4837776 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
4837691 TAAAACACAT
4837701 AGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAAACTG
1 AGCAATAGCGGCGCTTTT-CCAAAAACGCCGCTAAAAACTG
***
4837741 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGCAATAGCGGCGCTTTTCCAAAAACGCCGCTAAAA
4837777 GACAGATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (40 bp):
AGCAATAGCGGCGCTTTTCCAAAAACGCCGCTAAAAACTG
Found at i:4837808 original size:31 final size:32
Alignment explanation
Indices: 4837770--4837830 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
4837760 GTAAAACGCC
*
4837770 GCTAAAAGACAGATCTTTAGCAGCG-TTTTAA
1 GCTAAAAGACAGAGCTTTAGCAGCGCTTTTAA
*
4837801 GCTAAAAGACAGAGCTTTAGCGGCGCTTTT
1 GCTAAAAGACAGAGCTTTAGCAGCGCTTTT
4837831 GGTAAAACGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (32 bp):
GCTAAAAGACAGAGCTTTAGCAGCGCTTTTAA
Done.