Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 230 of 259
Found at i:72071137 original size:29 final size:28
Alignment explanation
Indices: 72071098--72071169 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
72071088 ATATTAAAAG
* *
72071098 ATAA-ATA-AAATATATTAATTTATTTTT
1 ATAATATATAAATATATT-ATTTATATAT
*
72071125 ATATTATATAAATATAATTATTTATATAT
1 ATAATATATAAATAT-ATTATTTATATAT
*
72071154 GTAATATATAAATATA
1 ATAATATATAAATATA
72071170 AAATAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.08
28 4 0.11
29 27 0.73
30 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
ATAATATATAAATATATTATTTATATAT
Found at i:72071189 original size:14 final size:15
Alignment explanation
Indices: 72071125--72071208 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 15
72071115 ATTTATTTTT
72071125 ATATTATATAAATATA
1 ATATTATATAAA-ATA
*
72071141 ATTATTTATATATGTAAT-
1 A-TA-TTATATA--AAATA
*
72071159 ATATAAATATAAAATA
1 ATAT-TATATAAAATA
72071175 ATATTATAT-AAATA
1 ATATTATATAAAATA
72071189 ATATTACATATATAAATA
1 ATATT--ATATA-AAATA
72071207 AT
1 AT
72071209 TATGTTAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.19
15 7 0.13
16 10 0.19
17 9 0.17
18 15 0.28
19 2 0.04
20 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
ATATTATATAAAATA
Found at i:72071793 original size:6 final size:6
Alignment explanation
Indices: 72071782--72071826 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
72071772 TTGCCTCTTA
72071782 CCACTG CCACTG CCACTG CCACTG CCACTG CCACTG CCACTG CCA
1 CCACTG CCACTG CCACTG CCACTG CCACTG CCACTG CCACTG CCA
72071827 GAGATATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.51, G:0.16, T:0.16
Consensus pattern (6 bp):
CCACTG
Found at i:72073808 original size:26 final size:25
Alignment explanation
Indices: 72073769--72073817 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
72073759 ATAATTCGAT
*
72073769 TTAATTTAGTTTTTAAATTTTTATA
1 TTAATTTAGATTTTAAATTTTTATA
* *
72073794 TTAATTTTAGATTTTGAGTTTTTA
1 TTAA-TTTAGATTTTAAATTTTTA
72073818 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (25 bp):
TTAATTTAGATTTTAAATTTTTATA
Found at i:72074062 original size:15 final size:16
Alignment explanation
Indices: 72074042--72074084 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
72074032 GATAATTTTC
72074042 AATTAAATTAT-ATTA
1 AATTAAATTATAATTA
* *
72074057 AATTAAATTTTAATTC
1 AATTAAATTATAATTA
72074073 AATTCAAATTAT
1 AATT-AAATTAT
72074085 TATGATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAATTATAATTA
Found at i:72075358 original size:9 final size:9
Alignment explanation
Indices: 72075344--72075371 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
72075334 TGTTTATCAA
72075344 TTATTTATT
1 TTATTTATT
72075353 TTATTTATT
1 TTATTTATT
72075362 TTATTTATT
1 TTATTTATT
72075371 T
1 T
72075372 CTCCATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTATT
Found at i:72075672 original size:14 final size:15
Alignment explanation
Indices: 72075653--72075681 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72075643 TTATATACAT
72075653 AATTTAAA-ATTTAA
1 AATTTAAATATTTAA
72075667 AATTTAAATATTTAA
1 AATTTAAATATTTAA
72075682 CATGCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATATTTAA
Found at i:72083791 original size:32 final size:32
Alignment explanation
Indices: 72083750--72083813 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
72083740 CCTATGGAGA
72083750 GAGTTTAACAATGTCATTTTTAGCAACAAATC
1 GAGTTTAACAATGTCATTTTTAGCAACAAATC
72083782 GAGTTTAACAATGTCATTTTTAGCAACAAATC
1 GAGTTTAACAATGTCATTTTTAGCAACAAATC
72083814 AAATTATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
GAGTTTAACAATGTCATTTTTAGCAACAAATC
Found at i:72093924 original size:90 final size:90
Alignment explanation
Indices: 72093758--72094040 Score: 388
Period size: 90 Copynumber: 3.1 Consensus size: 90
72093748 GCTTTCAATT
** ** ** * * *
72093758 TTTTTTAAAAAAAAAATATTAAATCCCTACTTAATTTTT-CACTTATTTGGGTATTTGAACTTTC
1 TTTTTTAAAAAAAGCA-ATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTC
* * **
72093822 AAAATATATCAAAAATATTCTCAAAC
65 AAAATACATCAAAAAGACCCTCAAAC
*
72093848 TTTTTTAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCA
1 TTTTTTAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
* *
72093913 AAATGCATCAAAAAGGCCCTCAAAC
66 AAATACATCAAAAAGACCCTCAAAC
*
72093938 TTTTTTAGAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
1 TTTTTTAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
72094003 AAATACATCAAAAAGACCCTCAAAC
66 AAATACATCAAAAAGACCCTCAAAC
*
72094028 TTTTTCAAAAAAA
1 TTTTTTAAAAAAA
72094041 AAACAATTAA
Statistics
Matches: 170, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 18 0.11
90 152 0.89
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (90 bp):
TTTTTTAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
AAATACATCAAAAAGACCCTCAAAC
Found at i:72094487 original size:11 final size:10
Alignment explanation
Indices: 72094472--72094497 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
72094462 AAAATTTATA
72094472 ATTTTTTTTT
1 ATTTTTTTTT
72094482 ATTTTTTTTT
1 ATTTTTTTTT
72094492 ATTTTT
1 ATTTTT
72094498 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:72097575 original size:27 final size:27
Alignment explanation
Indices: 72097539--72097592 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
72097529 ACATTCTAAT
*
72097539 AAAAAATTAAATTATTTTATATTTTTA
1 AAAAAATTAAATTATTTTAAATTTTTA
* *
72097566 AAAAAATTAATTTTTTTTAAATTTTTA
1 AAAAAATTAAATTATTTTAAATTTTTA
72097593 TTGACGTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AAAAAATTAAATTATTTTAAATTTTTA
Found at i:72098039 original size:6 final size:7
Alignment explanation
Indices: 72098020--72098050 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
72098010 GTAATATCAC
72098020 AATTTTT
1 AATTTTT
72098027 AATTTTT
1 AATTTTT
72098034 AATTTTT
1 AATTTTT
72098041 AATTTTT
1 AATTTTT
72098048 AAT
1 AAT
72098051 ATAATACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:72103442 original size:13 final size:13
Alignment explanation
Indices: 72103424--72103450 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72103414 TCAATTAGTA
72103424 ATTTTTATTTTTT
1 ATTTTTATTTTTT
72103437 ATTTTTATTTTTT
1 ATTTTTATTTTTT
72103450 A
1 A
72103451 AATTTGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:72106818 original size:42 final size:42
Alignment explanation
Indices: 72106759--72106843 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
72106749 TGGTTGAAGA
72106759 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
1 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
72106801 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
1 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
72106843 A
1 A
72106844 AGTTATTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (42 bp):
ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
Found at i:72119590 original size:19 final size:16
Alignment explanation
Indices: 72119553--72119585 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
72119543 ATTTAAGATG
72119553 GCAACAAAATACAGTT
1 GCAACAAAATACAGTT
72119569 GCAACAAAATACAGTT
1 GCAACAAAATACAGTT
72119585 G
1 G
72119586 TTGCATGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (16 bp):
GCAACAAAATACAGTT
Found at i:72124355 original size:18 final size:19
Alignment explanation
Indices: 72124322--72124362 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
72124312 ACAAAAAAAT
*
72124322 AAAATCAAAATAATTTTTA
1 AAAATCAAAATAATTTATA
*
72124341 AAAATTAAAAT-ATTTATA
1 AAAATCAAAATAATTTATA
72124359 AAAA
1 AAAA
72124363 ATCCCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATCAAAATAATTTATA
Found at i:72124363 original size:19 final size:19
Alignment explanation
Indices: 72124322--72124365 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
72124312 ACAAAAAAAT
*
72124322 AAAATCAAAATAATTTTTA
1 AAAATCAAAATAATTTTAA
*
72124341 AAAATTAAAAT-ATTTATAA
1 AAAATCAAAATAATTT-TAA
72124360 AAAATC
1 AAAATC
72124366 CCAAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATCAAAATAATTTTAA
Found at i:72124396 original size:10 final size:10
Alignment explanation
Indices: 72124381--72124412 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
72124371 TTTTCATATT
72124381 TAAAAAATTA
1 TAAAAAATTA
72124391 TAAAAAA--A
1 TAAAAAATTA
72124399 TAAAAAATTA
1 TAAAAAATTA
72124409 TAAA
1 TAAA
72124413 GGGTATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:72125595 original size:5 final size:5
Alignment explanation
Indices: 72125585--72125616 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
72125575 TCACCATTCA
72125585 CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CC
1 CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CC
72125617 TGTGTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.62, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAC
Found at i:72134232 original size:15 final size:15
Alignment explanation
Indices: 72134212--72134245 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
72134202 ACCAAGGAAC
* *
72134212 GGAAAGAGAGGAGGA
1 GGAAAGAAAGGAAGA
72134227 GGAAAGAAAGGAAGA
1 GGAAAGAAAGGAAGA
72134242 GGAA
1 GGAA
72134246 TGTGAAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (15 bp):
GGAAAGAAAGGAAGA
Found at i:72143522 original size:18 final size:17
Alignment explanation
Indices: 72143492--72143560 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 17
72143482 ATAATTTTGA
*
72143492 TTTT-AATTTTAATTAT
1 TTTTAAATTATAATTAT
72143508 TTTTAAATGTATAATTA-
1 TTTTAAAT-TATAATTAT
** * *
72143525 ACTCAGATTATAATTAT
1 TTTTAAATTATAATTAT
72143542 TTTTAAATATATAATTAT
1 TTTTAAAT-TATAATTAT
72143560 T
1 T
72143561 CTTGCTTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
16 12 0.30
17 11 0.28
18 17 0.43
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTAAATTATAATTAT
Found at i:72148254 original size:21 final size:21
Alignment explanation
Indices: 72148186--72148255 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
72148176 ACAGGATATA
72148186 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
** * *
72148207 AAA-GATACAATGGCAACATGATATG
1 AAATG-TGTAA--G-ACCATGGT-TG
72148232 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
72148253 AAA
1 AAA
72148256 GATACCATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 6 0.17
23 2 0.06
24 6 0.17
25 8 0.23
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (21 bp):
AAATGTGTAAGACCATGGTTG
Found at i:72148397 original size:137 final size:137
Alignment explanation
Indices: 72148055--72148473 Score: 455
Period size: 137 Copynumber: 3.1 Consensus size: 137
72148045 ATGAAATGTG
* * * * * ***
72148055 TAAGGCCATGGTTGAAAGATACCATGGCAACATGA-TTAGAAATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGAAACAATGGCAACATAACAT-GAAATGAACAAGACCATGGTTGAAAG
* * * *
72148119 ACACCATGGCAACATGATATAAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACAGGATA
65 ATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-C
* **
72148184 TAAAATGTG
129 GAAAATGAA
* * * ***
72148193 TAAGACCATGGTTGAAAGATACAATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGAAACAATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
* * *
72148258 TACCATGGCAACAGGATATAAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
*
72148323 GAATGAA
131 AAATGAA
* **
72148330 TAAGACCATGGTTGAAAGAAACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGAAACAATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
* * * * * * * * *
72148395 TACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTTGAAAAACACTATGGCATCATGAC-A
66 TACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
*
72148459 AAGATAAA
131 AA-ATGAA
72148467 TAAGACC
1 TAAGACC
72148474 GTGGATGGGA
Statistics
Matches: 242, Mismatches: 37, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
136 1 0.00
137 123 0.51
138 117 0.48
139 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGAAACAATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
AAATGAA
Found at i:72148458 original size:46 final size:46
Alignment explanation
Indices: 72148048--72148456 Score: 484
Period size: 46 Copynumber: 8.9 Consensus size: 46
72148038 TTCTAAAATG
*
72148048 AAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGATTAG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAGA
* *
72148094 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * *
72148140 AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
*
72148186 AAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
* *
72148232 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * *
72148278 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* ** * ** * *
72148323 GAATGAATAAGACCATGGTTGAAAGAAACCATGGCAATGTAACATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
*** * *
72148369 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * * * *
72148415 AAATGAGTAAGACCATAGTTGAAAAACACTATGGCATCATGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
72148457 CAAAGATAAA
Statistics
Matches: 316, Mismatches: 41, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
45 37 0.12
46 278 0.88
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:72150186 original size:19 final size:19
Alignment explanation
Indices: 72150162--72150199 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
72150152 TCAAATTTTG
*
72150162 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
72150181 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
72150200 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:72150899 original size:20 final size:20
Alignment explanation
Indices: 72150861--72150900 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72150851 CGTAAAATCA
**
72150861 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
72150881 TTTCTGGAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
72150901 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:72153578 original size:11 final size:10
Alignment explanation
Indices: 72153538--72153594 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
72153528 CTAATATATT
*
72153538 TTAAAAATCA
1 TTAAAAATTA
72153548 -TAAAAATT-
1 TTAAAAATTA
* *
72153556 CTAAAAAATA
1 TTAAAAATTA
*
72153566 TTAAAGGATTA
1 TTAAA-AATTA
72153577 TTAAAAATTA
1 TTAAAAATTA
72153587 TTAAAAAT
1 TTAAAAAT
72153595 GTCAAAATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 14 0.37
10 16 0.42
11 8 0.21
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:72161861 original size:21 final size:20
Alignment explanation
Indices: 72161833--72161871 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
72161823 GTGTTCAGTT
*
72161833 AATTTATTGACTTTAATTCA
1 AATTTATTAACTTTAATTCA
*
72161853 AATTGTATTAATTTTAATT
1 AATT-TATTAACTTTAATT
72161872 TATTTGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
AATTTATTAACTTTAATTCA
Found at i:72163384 original size:14 final size:15
Alignment explanation
Indices: 72163359--72163391 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
72163349 TAATTGAAAT
*
72163359 AAATAATAATTTTTA
1 AAATAATAATTTTAA
72163374 AAATAAT-ATTTTAA
1 AAATAATAATTTTAA
72163388 AAAT
1 AAAT
72163392 GATGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATAATAATTTTAA
Found at i:72165025 original size:42 final size:48
Alignment explanation
Indices: 72164959--72165053 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 48
72164949 AAAGTGTATT
*
72164959 TTAATATTTCCTTAAATTTATCTATTTAGA-T-T-ATATAATAT-ATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
*
72165003 TTAAAATTT-CTT-AATTTCTCTATTTAGATTATAATATAATATAATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
72165049 TTAAA
1 TTAAA
72165054 TTTATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 15 0.33
43 4 0.09
44 9 0.20
45 9 0.20
46 8 0.18
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (48 bp):
TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
Found at i:72166061 original size:21 final size:21
Alignment explanation
Indices: 72166022--72166062 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
72166012 ATATTAAAAT
*
72166022 ATATTTTATATTAATATTTAC
1 ATATTTTAAATTAATATTTAC
72166043 ATATTTTACAATTAA-ATTTA
1 ATATTTTA-AATTAATATTTA
72166063 TATTCATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTAAATTAATATTTAC
Found at i:72167085 original size:20 final size:19
Alignment explanation
Indices: 72167056--72167103 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
72167046 TAAATAATTT
* *
72167056 AAAATTAAAAGAAGAGATAA
1 AAAATGAAAAGAA-AGAAAA
*
72167076 AAAATGAAAATAAAGAAAA
1 AAAATGAAAAGAAAGAAAA
72167095 AAAATGAAA
1 AAAATGAAA
72167104 CCAACAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAATGAAAAGAAAGAAAA
Found at i:72168097 original size:27 final size:27
Alignment explanation
Indices: 72168011--72168102 Score: 105
Period size: 26 Copynumber: 3.3 Consensus size: 27
72168001 AAATAGTAAA
*
72168011 TACCAAATTAGGAAAAAATGTCAAATTTGGG
1 TACCAAATTA-GAAAAAA--T-AAATTTAGG
*
72168042 TACCAAATTAGACAAAA-AAATTTAGG
1 TACCAAATTAGAAAAAATAAATTTAGG
*
72168068 TACCAAATTAGAAAAAATAAATTCAGG
1 TACCAAATTAGAAAAAATAAATTTAGG
*
72168095 TACTAAAT
1 TACCAAAT
72168103 ATTATATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 24 0.44
27 15 0.27
30 6 0.11
31 10 0.18
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (27 bp):
TACCAAATTAGAAAAAATAAATTTAGG
Found at i:72183433 original size:22 final size:23
Alignment explanation
Indices: 72183406--72183676 Score: 195
Period size: 22 Copynumber: 11.4 Consensus size: 23
72183396 CACTAATGAA
72183406 CAGAGAGCACTGAAGTGCTATA-
1 CAGAGAGCACTGAAGTGCTATAT
*
72183428 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
*
72183450 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
72183475 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
*
72183497 CAGAGAGCACTGATGTGCTAATATT
1 CAGAGAGCACTGAAGTGCT-ATA-T
*
72183522 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
*
72183544 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
72183569 CAGAGAGCACAAATGATTTGTGCTA-AT
1 CAGAGAGCAC---TGA--AGTGCTATAT
* *
72183596 CAGAGAGGACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
72183621 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
72183643 CAGAGAGCACT-AATGTGCTAATATT
1 CAGAGAGCACTGAA-GTGCT-ATA-T
72183668 CAGAGAGCA
1 CAGAGAGCA
72183677 TGCTGAGGTC
Statistics
Matches: 203, Mismatches: 17, Indels: 55
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.01
22 89 0.44
23 8 0.04
24 12 0.06
25 71 0.35
27 11 0.05
28 4 0.02
30 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (23 bp):
CAGAGAGCACTGAAGTGCTATAT
Found at i:72183482 original size:47 final size:46
Alignment explanation
Indices: 72183406--72183676 Score: 393
Period size: 47 Copynumber: 5.7 Consensus size: 46
72183396 CACTAATGAA
*
72183406 CAGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
72183450 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
*
72183497 CAGAGAGCACTGATGTGCTAATATTCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCACAAATGTGCTAAT
72183544 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGATTTGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCAC-AA--A--TGTGCTAAT
*
72183596 CAGAGAGGACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
* *
72183643 CAGAGAGCACTAATGTGCTAATATTCAGAGAGCA
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCA
72183677 TGCTGAGGTC
Statistics
Matches: 209, Mismatches: 7, Indels: 19
0.89 0.03 0.08
Matches are distributed among these distances:
44 18 0.09
46 11 0.05
47 127 0.61
48 6 0.03
49 1 0.00
50 1 0.00
51 2 0.01
52 43 0.21
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (46 bp):
CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:72183662 original size:146 final size:138
Alignment explanation
Indices: 72183406--72183676 Score: 443
Period size: 146 Copynumber: 1.9 Consensus size: 138
72183396 CACTAATGAA
72183406 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
1 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
*
72183471 ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGATGTGCTAATATTCAGAGAGCACAAAT
66 ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTGCTAATATTCAGAGAGCACAAAT
72183536 GTGCTAAT
131 GTGCTAAT
* *
72183544 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGATTTGTGCTAATCAGAGAGGACTGA
1 CAGAGAGCACTGAAGTGCT--ATA-CAGAGAGCAC-AA--A--TGTGCTAATCAGAGAGCACTGA
72183609 CGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTGCTAATATTCAGAGA
58 CGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTGCTAATATTCAGAGA
72183674 GCA
123 GCA
72183677 TGCTGAGGTC
Statistics
Matches: 122, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
138 18 0.15
140 3 0.02
141 10 0.08
142 2 0.02
144 1 0.01
146 88 0.72
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (138 bp):
CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTGCTAATATTCAGAGAGCACAAAT
GTGCTAAT
Found at i:72185210 original size:30 final size:30
Alignment explanation
Indices: 72185176--72185233 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
72185166 TCCGAGCCTT
* *
72185176 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* *
72185206 GGGGCAAAATTATAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
72185234 GGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:72185463 original size:13 final size:13
Alignment explanation
Indices: 72185445--72185476 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
72185435 TTTCCAGCAA
72185445 TTATGAATTTATT
1 TTATGAATTTATT
72185458 TTATGAATTTATT
1 TTATGAATTTATT
*
72185471 TGATGA
1 TTATGA
72185477 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:72185684 original size:50 final size:50
Alignment explanation
Indices: 72185571--72185812 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
72185561 ATTTGGGTAA
* * *
72185571 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
72185627 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
72185677 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
72185727 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCA-CTATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
72185777 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
72185813 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:72185760 original size:100 final size:103
Alignment explanation
Indices: 72185571--72185820 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
72185561 ATTTGGGTAA
72185571 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
72185636 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCA-CGATCACG
* * *
72185677 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
72185739 TAAGACCATGTCTGGGACATGGCATGGGCACTATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
* *
72185777 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
72185821 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 2 0.02
100 49 0.37
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
Found at i:72189377 original size:5 final size:5
Alignment explanation
Indices: 72189362--72189394 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
72189352 CAATTGTGAT
72189362 AACCAA AACCA AACCA AACCA AACCA AACCA AA
1 AACC-A AACCA AACCA AACCA AACCA AACCA AA
72189395 GACAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCA
Found at i:72190842 original size:24 final size:24
Alignment explanation
Indices: 72190815--72190868 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
72190805 TTTCTCCTAG
*
72190815 GGGAGCAAGAGGTGGTCCTTCAAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
* *
72190839 GGGAGCAAGGGGTGGTCCTCCTAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
72190863 GGGAGC
1 GGGAGC
72190869 TTCAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (24 bp):
GGGAGCAAGAGGTGGTCCTCCAAT
Found at i:72192968 original size:22 final size:22
Alignment explanation
Indices: 72192926--72192986 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
72192916 AAAATTAGAA
*
72192926 AAATAATAAATA-ATAAA-TTTT
1 AAATAA-AAATATAAAAATTTTT
*
72192947 AAA-AAAAAGTATTAAAATTTTT
1 AAATAAAAA-TATAAAAATTTTT
72192969 AAATAAAAATATAAAAAT
1 AAATAAAAATATAAAAAT
72192987 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 6 0.18
22 15 0.45
23 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATAAAAATATAAAAATTTTT
Found at i:72192982 original size:8 final size:8
Alignment explanation
Indices: 72192971--72193000 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
72192961 AAATTTTTAA
72192971 ATAAAAAT
1 ATAAAAAT
72192979 ATAAAAAT
1 ATAAAAAT
72192987 ATAAAAAT
1 ATAAAAAT
72192995 ATAAAA
1 ATAAAA
72193001 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:72193283 original size:9 final size:9
Alignment explanation
Indices: 72193211--72193447 Score: 74
Period size: 9 Copynumber: 25.2 Consensus size: 9
72193201 TTTGGTACTA
72193211 AATTTTTAT
1 AATTTTTAT
*
72193220 AATATTTAT
1 AATTTTTAT
72193229 -ATTTCTT-T
1 AATTT-TTAT
*
72193237 ACATTTTGCAT
1 A-ATTTT-TAT
72193248 AATTTGCTTAT
1 AATTT--TTAT
* * *
72193259 GACTTTATAA
1 -AATTTTTAT
72193269 AATTTTTAT
1 AATTTTTAT
*
72193278 AATTTTTTT
1 AATTTTTAT
*
72193287 ATATTTCTAT
1 A-ATTTTTAT
72193297 -ATATTTTAT
1 AAT-TTTTAT
* *
72193306 AAAATTTTAC
1 -AATTTTTAT
72193316 AATTTTTTAT
1 AA-TTTTTAT
*
72193326 ATTTTTTAT
1 AATTTTTAT
*
72193335 GATTTTTAT
1 AATTTTTAT
* *
72193344 ATTTTTTCT
1 AATTTTTAT
72193353 AATTTTTAAT
1 AATTTTT-AT
*
72193363 AAATATTTAGT
1 -AATTTTTA-T
*
72193374 -A-TTTGA-
1 AATTTTTAT
72193380 AATTTTTTATT
1 AA-TTTTTA-T
*
72193391 AAATTTTAAT
1 -AATTTTTAT
*
72193401 AATATTTAT
1 AATTTTTAT
*
72193410 AAATTTTATT
1 AATTTTTA-T
* *
72193420 GATTTTAAT
1 AATTTTTAT
*
72193429 -TTTTTTAT
1 AATTTTTAT
*
72193437 AATTTTAAT
1 AATTTTTAT
72193446 AA
1 AA
72193448 GAGCAGTAAC
Statistics
Matches: 162, Mismatches: 42, Indels: 48
0.64 0.17 0.19
Matches are distributed among these distances:
7 1 0.01
8 15 0.09
9 86 0.53
10 36 0.22
11 17 0.10
12 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:72193347 original size:27 final size:27
Alignment explanation
Indices: 72193213--72193360 Score: 89
Period size: 28 Copynumber: 5.2 Consensus size: 27
72193203 TGGTACTAAA
* *
72193213 TTTTTATAATATTTATATTTCTTTACAT
1 TTTTTATAATTTTTATATTT-TTTATAT
** * * * *
72193241 TTTGCATAATTTGCTTATGACTTTATAAAA
1 TTTTTATAATTT--TTAT-ATTTTTTATAT
* *
72193271 TTTTTATAATTTTTTTATATTTCTATAT
1 TTTTTATAATTTTTATAT-TTTTTATAT
* * *
72193299 ATTTTATAAAATTTTACAATTTTTTATAT
1 TTTTTAT-AATTTTTA-TATTTTTTATAT
* * *
72193328 TTTTTATGATTTTTATATTTTTTCTAA
1 TTTTTATAATTTTTATATTTTTTATAT
72193355 TTTTTA
1 TTTTTA
72193361 ATAAATATTT
Statistics
Matches: 89, Mismatches: 25, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
27 16 0.18
28 30 0.34
29 20 0.22
30 20 0.22
31 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTTATAATTTTTATATTTTTTATAT
Found at i:72193652 original size:91 final size:92
Alignment explanation
Indices: 72193466--72193653 Score: 247
Period size: 92 Copynumber: 2.1 Consensus size: 92
72193456 ACTTAATTGC
* * * * * *
72193466 TTTTGTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTATTCAATTGAGTGC
1 TTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAATGAGTGC
* *
72193531 AAAAAAAGTAGGTGCTTAATTGCTTTT
66 AAAAAAAGTAGGGGCTTAATTACTTTT
*
72193558 TTTTTTTGAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTAAAAGTTCAAGTAC-CTAAATGAGT
1 TTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAGTACTC-AAATGAGT
*
72193621 GTAAAAAAA-TAGGGGCTTAATTACTTTT
64 GCAAAAAAAGTAGGGGCTTAATTACTTTT
72193649 TTTTT
1 TTTTT
72193654 AATTAAGAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
91 24 0.29
92 60 0.71
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (92 bp):
TTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAATGAGTGC
AAAAAAAGTAGGGGCTTAATTACTTTT
Found at i:72204914 original size:13 final size:13
Alignment explanation
Indices: 72204896--72204920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72204886 TTCTCTTCCC
72204896 TTTTTTATTTTTA
1 TTTTTTATTTTTA
72204909 TTTTTTATTTTT
1 TTTTTTATTTTT
72204921 CACTATTTCC
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:72207781 original size:16 final size:18
Alignment explanation
Indices: 72207752--72207787 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
72207742 TTAATCAATT
72207752 AATTAAATTAA-TTTCTC
1 AATTAAATTAATTTTCTC
72207769 AATTAAA-TAATTTTCTC
1 AATTAAATTAATTTTCTC
72207786 AA
1 AA
72207788 CTCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:72223750 original size:25 final size:25
Alignment explanation
Indices: 72223716--72223768 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
72223706 AAAGGAAAAT
72223716 TATATTTTTGGTCTGTCTATTTTTC
1 TATATTTTTGGTCTGTCTATTTTTC
*
72223741 TATATTTTTGGTCTGTCTCTTTTTC
1 TATATTTTTGGTCTGTCTATTTTTC
72223766 TAT
1 TAT
72223769 CCCTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (25 bp):
TATATTTTTGGTCTGTCTATTTTTC
Found at i:72238198 original size:57 final size:57
Alignment explanation
Indices: 72238106--72238220 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
72238096 TAATAGAAGC
*
72238106 CCAGCAACATTCCTTAATAGCAATAGCATTGTCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
72238163 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
72238220 C
1 C
72238221 TTTTTGCTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (57 bp):
CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
Found at i:72238427 original size:15 final size:15
Alignment explanation
Indices: 72238407--72238436 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72238397 AGGATTCTTA
*
72238407 GTATCTACATCATTT
1 GTATCTACATAATTT
72238422 GTATCTACATAATTT
1 GTATCTACATAATTT
72238437 TGATAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (15 bp):
GTATCTACATAATTT
Found at i:72241628 original size:27 final size:29
Alignment explanation
Indices: 72241571--72241631 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
72241561 TTTAAATTCG
* *
72241571 AAAAATAAATAGATTAAAATTTTGAAAAT
1 AAAAATAAATAGACTAAAATTCTGAAAAT
72241600 AAAAATAAA-AGACT-AAATTCT-AAATAT
1 AAAAATAAATAGACTAAAATTCTGAAA-AT
72241627 AAAAA
1 AAAAA
72241632 ATTATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.10
27 13 0.45
28 4 0.14
29 9 0.31
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAATAAATAGACTAAAATTCTGAAAAT
Found at i:72252413 original size:37 final size:37
Alignment explanation
Indices: 72252363--72252441 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72252353 TTATTATGAA
* * *
72252363 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72252400 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72252437 GTCTT
1 GTCTT
72252442 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72252781 original size:49 final size:47
Alignment explanation
Indices: 72252560--72253023 Score: 741
Period size: 47 Copynumber: 9.7 Consensus size: 47
72252550 CCCTTCGGGA
* * * * * *
72252560 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72252607 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72252654 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72252701 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72252748 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72252797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72252844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72252893 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72252942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72252989 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
72253024 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 254 0.64
49 141 0.36
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72252789 original size:96 final size:96
Alignment explanation
Indices: 72252560--72253023 Score: 744
Period size: 96 Copynumber: 4.9 Consensus size: 96
72252550 CCCTTCGGGA
* * * * * * *
72252560 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
72252623 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
72252654 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
72252717 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
72252748 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
72252813 ACTTTCACATTCATCACATCGGCCATTGGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
72252844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
72252909 ACACTTTCACATTCATCACATCGGCCATTAGAC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
72252942 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
72253005 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
72253024 AGAATCCTAA
Statistics
Matches: 349, Mismatches: 14, Indels: 14
0.93 0.04 0.04
Matches are distributed among these distances:
93 2 0.01
94 115 0.33
96 187 0.54
98 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72256913 original size:40 final size:40
Alignment explanation
Indices: 72256881--72257072 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
72256871 CCAGCATGAT
* * *
72256881 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
72256921 TGCTCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
72256961 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
72257001 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
72257041 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
72257073 CTCAATTCTC
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:72258337 original size:37 final size:37
Alignment explanation
Indices: 72258287--72258365 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72258277 TTATTACGAA
* * *
72258287 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72258324 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72258361 GTCTT
1 GTCTT
72258366 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72258598 original size:43 final size:43
Alignment explanation
Indices: 72258490--72258624 Score: 171
Period size: 43 Copynumber: 3.0 Consensus size: 43
72258480 GGGACTTATC
* * * * **
72258490 ACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGT
1 ACATATATACACTTTCACATTCATCACATCGGCCA-TTAGCC-T-T
72258536 CACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTT
1 -ACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTT
72258580 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTT
72258624 A
1 A
72258625 TCACACCTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
43 38 0.47
44 7 0.09
45 1 0.01
46 4 0.05
47 31 0.38
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (43 bp):
ACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTT
Found at i:72258693 original size:49 final size:49
Alignment explanation
Indices: 72258484--72258981 Score: 736
Period size: 49 Copynumber: 10.3 Consensus size: 49
72258474 CCCTTCGGGA
* * * * *
72258484 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72258531 CTTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258577 C-T-T-AC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258621 CTTATCACACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CA-C--AT---ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258678 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258727 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258776 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72258823 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTGGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72258872 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72258921 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72258968 CTTGTCACATATAT
1 CTTATCACATATAT
72258982 GCATGTTCAC
Statistics
Matches: 418, Mismatches: 13, Indels: 38
0.89 0.03 0.08
Matches are distributed among these distances:
43 38 0.09
44 4 0.01
45 2 0.00
46 5 0.01
47 127 0.30
49 192 0.46
50 1 0.00
52 2 0.00
54 1 0.00
55 2 0.00
57 44 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72258806 original size:145 final size:145
Alignment explanation
Indices: 72258484--72258981 Score: 751
Period size: 145 Copynumber: 3.4 Consensus size: 145
72258474 CCCTTCGGGA
* * * * * * *
72258484 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
72258547 ACTTTCACATTCATCACATCGGCCATTA-GCC-T-T-AC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
72258606 CATCGGCCATTAGGCCTTATCACAC
131 CATCGGCCATTAGG----------C
72258631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
72258696 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
72258761 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
72258776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
72258841 ACTTTCACATCCATCACATCGGCCATTGGGCCTTATCACATATATATATACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
72258906 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
72258921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
72258982 GCATGTTCAC
Statistics
Matches: 332, Mismatches: 11, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
145 203 0.61
147 48 0.14
149 36 0.11
150 3 0.01
151 1 0.00
152 1 0.00
153 2 0.01
155 38 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:72260074 original size:46 final size:46
Alignment explanation
Indices: 72259968--72260288 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
72259958 TTTGACATGA
* * * * ** * * *
72259968 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
72260015 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
72260061 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
72260107 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
72260153 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
72260199 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
72260245 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
72260289 AGAGCACACT
Statistics
Matches: 248, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
46 219 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:72262461 original size:18 final size:20
Alignment explanation
Indices: 72262446--72262482 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72262436 TAATAATAAA
*
72262446 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
72262466 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
72262483 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:72266405 original size:68 final size:64
Alignment explanation
Indices: 72266295--72266547 Score: 228
Period size: 68 Copynumber: 3.9 Consensus size: 64
72266285 ATACAAATGG
** * * *
72266295 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
72266358 ATTA
62 A-TA
* *
72266362 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
72266427 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
72266492 TA
63 TA
* * *
72266494 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
72266548 CAAAATTATG
Statistics
Matches: 154, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 22 0.14
67 33 0.21
68 51 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:72267443 original size:22 final size:22
Alignment explanation
Indices: 72267418--72267463 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
72267408 TTATGAACCT
72267418 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
72267440 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
72267462 GT
1 GT
72267464 ATGTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (22 bp):
GTTTATGATTGTAATAGTGAAA
Found at i:72268601 original size:21 final size:20
Alignment explanation
Indices: 72268541--72268634 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
72268531 TTTTATAATA
72268541 TTTAATAATTTTATATACCAATTT
1 TTTAATAA-TTTATAT---AATTT
72268565 TTTAATAATTTATATAATTT
1 TTTAATAATTTATATAATTT
** *
72268585 TTTAGATTTTTTTTATAATTT
1 TTTA-ATAATTTATATAATTT
** *
72268606 TACAATATTTTA-ATAA-TT
1 TTTAATAATTTATATAATTT
*
72268624 TCTAATAATTT
1 TTTAATAATTT
72268635 TTTAAACTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.17
19 4 0.07
20 15 0.25
21 15 0.25
23 7 0.12
24 8 0.14
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTAATAATTTATATAATTT
Found at i:72268606 original size:10 final size:10
Alignment explanation
Indices: 72268530--72268647 Score: 55
Period size: 10 Copynumber: 11.6 Consensus size: 10
72268520 TCACTTTAGA
72268530 TTTTTATAAT
1 TTTTTATAAT
* *
72268540 ATTTAATAAT
1 TTTTTATAAT
*
72268550 TTTATATACCAAT
1 TTT-T-TA-TAAT
72268563 TTTTTAATAA-
1 TTTTT-ATAAT
*
72268573 TTTATATAAT
1 TTTTTATAAT
* *
72268583 TTTTTAGATTT
1 TTTTTATA-AT
72268594 TTTTTATAA-
1 TTTTTATAAT
*
72268603 -TTTTACAAT
1 TTTTTATAAT
*
72268612 ATTTTAATAAT
1 -TTTTTATAAT
* *
72268623 TTCTAATAAT
1 TTTTTATAAT
*
72268633 TTTTTA-AAC
1 TTTTTATAAT
72268642 TTTTTA
1 TTTTTA
72268648 ATGAAAAATT
Statistics
Matches: 80, Mismatches: 19, Indels: 19
0.68 0.16 0.16
Matches are distributed among these distances:
8 7 0.09
9 12 0.15
10 33 0.41
11 19 0.24
12 3 0.04
13 6 0.08
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:72269147 original size:10 final size:10
Alignment explanation
Indices: 72269099--72269182 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 10
72269089 ATAACAAAAT
*
72269099 TTTTCTATAAT
1 TTTT-TATAAA
*
72269110 TTTCTTATATA
1 TTT-TTATAAA
*
72269121 TATTTATAAA
1 TTTTTATAAA
72269131 TTCTTTTATAAA
1 -T-TTTTATAAA
72269143 TTTTTA-AAA
1 TTTTTATAAA
* *
72269152 CTTTTAATAAG
1 -TTTTTATAAA
*
72269163 TTTTTATAAC
1 TTTTTATAAA
72269173 TTTTT-TAAA
1 TTTTTATAAA
72269182 T
1 T
72269183 AACTTTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.12
10 29 0.50
11 13 0.22
12 9 0.16
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:72269161 original size:20 final size:19
Alignment explanation
Indices: 72269133--72269182 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
72269123 TTTATAAATT
72269133 CTTTTATAAATTTTTAAAA
1 CTTTTATAAATTTTTAAAA
* *
72269152 CTTTTAATAAGTTTTTATAA
1 CTTTT-ATAAATTTTTAAAA
*
72269172 CTTTTTTAAAT
1 CTTTTATAAAT
72269183 AACTTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (19 bp):
CTTTTATAAATTTTTAAAA
Found at i:72269186 original size:13 final size:13
Alignment explanation
Indices: 72269168--72269192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72269158 ATAAGTTTTT
72269168 ATAACTTTTTTAA
1 ATAACTTTTTTAA
72269181 ATAACTTTTTTA
1 ATAACTTTTTTA
72269193 TTAAAAATTT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAACTTTTTTAA
Found at i:72273835 original size:5 final size:5
Alignment explanation
Indices: 72273825--72273850 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
72273815 CTGTCTTAAA
72273825 AATAG AATAG AATAG AATAG AATAG A
1 AATAG AATAG AATAG AATAG AATAG A
72273851 TTTTCAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:72279087 original size:30 final size:31
Alignment explanation
Indices: 72279050--72279135 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
72279040 TTTGTTTAAA
72279050 AAAAAATTAATAGGGATATTTTAGATAATAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
*** * *
72279081 -AAAAATTAATATAAATATTTTAGGTAGTAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
* * *
72279111 AAAAAATCAATAGGGGTAATTTAGA
1 AAAAAATTAATAGGGATATTTTAGA
72279136 CATTAACCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.34
Consensus pattern (31 bp):
AAAAAATTAATAGGGATATTTTAGATAATAT
Found at i:72286148 original size:14 final size:13
Alignment explanation
Indices: 72286126--72286167 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
72286116 AATTCCAGTG
72286126 TTCTTTCTTGTTTC
1 TTCTTTCTT-TTTC
*
72286140 TTCTCTCTTTTCTC
1 TTCTTTCTTTT-TC
72286154 TTCTTTCTTTTTC
1 TTCTTTCTTTTTC
72286167 T
1 T
72286168 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTTTTC
Found at i:72287302 original size:15 final size:16
Alignment explanation
Indices: 72287282--72287316 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
72287272 ATAAAATTAC
72287282 ATATATTA-ATTTAAA
1 ATATATTATATTTAAA
*
72287297 ATATATTATATTTAAC
1 ATATATTATATTTAAA
72287313 ATAT
1 ATAT
72287317 GATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTATATTTAAA
Found at i:72298422 original size:19 final size:19
Alignment explanation
Indices: 72298398--72298437 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
72298388 AAATCAAATG
* *
72298398 TAATTTTCAAATTTGAAAA
1 TAATTTTCAAAATTCAAAA
*
72298417 TAATTTTTAAAATTCAAAA
1 TAATTTTCAAAATTCAAAA
72298436 TA
1 TA
72298438 TTTATAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATTTTCAAAATTCAAAA
Found at i:72298448 original size:19 final size:19
Alignment explanation
Indices: 72298413--72298450 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
72298403 TTCAAATTTG
*
72298413 AAAATAATTTTTAAAATTC
1 AAAATAATTTATAAAATTC
72298432 AAAAT-ATTTATAGAAATTC
1 AAAATAATTTATA-AAATTC
72298451 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATAATTTATAAAATTC
Found at i:72299144 original size:20 final size:20
Alignment explanation
Indices: 72299106--72299145 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72299096 CGTAAAATCA
**
72299106 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
72299126 TTTCTGGAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
72299146 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:72311214 original size:13 final size:13
Alignment explanation
Indices: 72311198--72311227 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
72311188 TAATTGAAAT
72311198 AAATAATATTTTA
1 AAATAATATTTTA
72311211 AAATAATATTTTA
1 AAATAATATTTTA
72311224 AAAT
1 AAAT
72311228 GATGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATAATATTTTA
Found at i:72312685 original size:16 final size:15
Alignment explanation
Indices: 72312645--72312685 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
72312635 ATCAGTTGGT
72312645 ATTATATTTATA-A-A
1 ATTA-ATTTATATATA
72312659 ATTAATTTATATATA
1 ATTAATTTATATATA
72312674 ATTAATTT-TATA
1 ATTAATTTATATA
72312686 GATAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.28
14 9 0.36
15 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAATTTATATATA
Found at i:72312690 original size:16 final size:15
Alignment explanation
Indices: 72312645--72312690 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
72312635 ATCAGTTGGT
72312645 ATTATATTTATA-A-A
1 ATTA-ATTTATAGATA
*
72312659 ATTAATTTATATATA
1 ATTAATTTATAGATA
72312674 ATTAATTTTATAGATA
1 ATTAA-TTTATAGATA
72312690 A
1 A
72312691 ATATATTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.25
14 5 0.18
15 6 0.21
16 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTAATTTATAGATA
Found at i:72314651 original size:21 final size:20
Alignment explanation
Indices: 72314621--72314659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72314611 TATTTTTATT
72314621 ATTAAATTAAAATTTGAGAAA
1 ATTAAATT-AAATTTGAGAAA
*
72314642 ATTAATTTAAATTTGAGA
1 ATTAAATTAAATTTGAGA
72314660 GTAACTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTAAATTAAATTTGAGAAA
Found at i:72314859 original size:20 final size:19
Alignment explanation
Indices: 72314830--72314877 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
72314820 TAAATAATTT
* *
72314830 AAAATTAAAAGAAGAGATAA
1 AAAATGAAAAGAA-AGAAAA
*
72314850 AAAATGAAAATAAAGAAAA
1 AAAATGAAAAGAAAGAAAA
72314869 AAAATGAAA
1 AAAATGAAA
72314878 CCAACAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAATGAAAAGAAAGAAAA
Found at i:72315871 original size:27 final size:27
Alignment explanation
Indices: 72315787--72315876 Score: 101
Period size: 26 Copynumber: 3.3 Consensus size: 27
72315777 AAATAGTAAA
* * *
72315787 TACCAAATTAGGAAAAATGTCAATTTGGG
1 TACCAAATTA-GAAAAA-ATAAATTTAGG
*
72315816 TACCAAATTAGACAAAA-AAATTTAGG
1 TACCAAATTAGAAAAAATAAATTTAGG
*
72315842 TACCAAATTAGAAAAAATAAATTCAGG
1 TACCAAATTAGAAAAAATAAATTTAGG
*
72315869 TACTAAAT
1 TACCAAAT
72315877 ATTATATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 23 0.43
27 15 0.28
28 5 0.09
29 10 0.19
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (27 bp):
TACCAAATTAGAAAAAATAAATTTAGG
Found at i:72336966 original size:23 final size:25
Alignment explanation
Indices: 72336940--72336986 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
72336930 ATATCATTCT
*
72336940 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
72336963 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
72336987 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:72337306 original size:45 final size:44
Alignment explanation
Indices: 72337210--72337411 Score: 226
Period size: 45 Copynumber: 4.7 Consensus size: 44
72337200 TCTTTACTGA
* * * *
72337210 TGCCATAGTGTCTTTCAACTAT-GTCTTACTCATTTTC-TTCATG-
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CATTTTCATTCAGGT
*
72337253 TGCCATGGTATCTTTCAACCATGGTCTTATC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-CATTTTCAT-TCAGGT
**
72337298 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTTTCAT-TCAGGT
72337343 TGCCATGGTATCTTTCAACCATGGTCTTACA----CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTTTCATTCAGGT
72337381 TGCCATGGTATCTTTCAACCATGGTCTTACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACA
72337412 CATTTCATAT
Statistics
Matches: 146, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
38 36 0.25
41 2 0.01
42 5 0.03
43 22 0.15
44 11 0.08
45 70 0.48
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (44 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATTTTCATTCAGGT
Found at i:72337389 original size:38 final size:38
Alignment explanation
Indices: 72337338--72337413 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
72337328 ACATTCATAT
72337338 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
72337376 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
72337414 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:72341346 original size:85 final size:84
Alignment explanation
Indices: 72341111--72341666 Score: 863
Period size: 85 Copynumber: 6.6 Consensus size: 84
72341101 TGAATCCACA
*
72341111 CGCCTTAACCCCTTAAGCAGTA-GGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGT
72341175 GGTGGAGCAGGTCGAAGACT
65 GGTGGAGCAGGTCGAAGACT
*
72341195 CGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTG
1 CGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
72341260 GTGGAGCAGGTCGAAGACT
66 GTGGAGCAGGTCGAAGACT
* *
72341279 CGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATTTGGGCTCACCGAGCAGT
1 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGT
72341344 GGTGGAGCAGGTCGAAGA-T
65 GGTGGAGCAGGTCGAAGACT
*
72341363 CCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCCGAGCA
1 -CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-CTGGGCTCACCGAGCA
*
72341427 GTGGTGGAGTAGGTCGAAGACT
63 GTGGTGGAGCAGGTCGAAGACT
* *
72341449 CGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATTTGGGCTCACCGAGCAGT
1 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGT
*
72341514 GGTGGAACAGGTCGAAGA-T
65 GGTGGAGCAGGTCGAAGACT
* *
72341533 CCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCCGAACA
1 -CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-CTGGGCTCACCGAGCA
*
72341597 GTGGTGGAGTAGGTCGAAGACT
63 GTGGTGGAGCAGGTCGAAGACT
*
72341619 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGCTAAAA-TTACAGATCT
1 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
72341667 CATCCCACTA
Statistics
Matches: 440, Mismatches: 23, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
83 11 0.03
84 93 0.21
85 332 0.75
86 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (84 bp):
CGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
GTGGAGCAGGTCGAAGACT
Found at i:72341945 original size:133 final size:135
Alignment explanation
Indices: 72341707--72341984 Score: 384
Period size: 133 Copynumber: 2.1 Consensus size: 135
72341697 ATTTCGACAA
* *
72341707 ATCTTATCTTCACTAAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTAACG
1 ATCTTATCTTCACTAAGCAGGAGCGAAGCAAATCAAATTTTGGCAAGTCTTATCTCCATGTAACG
* * * *
72341772 GCAATGGAGTAGATTTCAGCCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-AT
66 GCAATGGAGTAGATTCCAACCATCAGCCTTATCTTCACTGAGCAGAAGTGGAACAGGCTAAACAT
*
72341835 ACTAG
131 ACCAG
** * * * *
72341840 ATCTTATCTTCGTTGAGCAGGAGCGGAGCAAATCAAATTTTGATG-AA-TCTTATCTCTATGTAT
1 ATCTTATCTTCACTAAGCAGGAGCGAAGCAAATCAAATTTTG--GCAAGTCTTATCTCCATGTAA
*
72341903 CGGCAATGGAGTAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGAAGTGGAACAGGCTAAAC
64 CGGCAATGGAGTAGATTCCAACCATCAGCCTTATCTTCACTGAGCAGAAGTGGAACAGGCTAAAC
72341968 ATACCAG
129 ATACCAG
72341975 ATCTTATCTT
1 ATCTTATCTT
72341985 TACTGGACAG
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
133 106 0.83
134 4 0.03
135 17 0.13
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (135 bp):
ATCTTATCTTCACTAAGCAGGAGCGAAGCAAATCAAATTTTGGCAAGTCTTATCTCCATGTAACG
GCAATGGAGTAGATTCCAACCATCAGCCTTATCTTCACTGAGCAGAAGTGGAACAGGCTAAACAT
ACCAG
Found at i:72342784 original size:26 final size:26
Alignment explanation
Indices: 72342748--72342797 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
72342738 TAGGGGATCG
*
72342748 CTTCCAGGATACATCCGTACCTATGT
1 CTTCCAGGATACATCCGTAACTATGT
*
72342774 CTTCCGGGATACATCCGTAACTAT
1 CTTCCAGGATACATCCGTAACTAT
72342798 ACCAAGCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (26 bp):
CTTCCAGGATACATCCGTAACTATGT
Found at i:72343412 original size:126 final size:126
Alignment explanation
Indices: 72343254--72343482 Score: 386
Period size: 126 Copynumber: 1.8 Consensus size: 126
72343244 GTTTTAGCCT
*
72343254 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * * *
72343319 CTTCGAATTCTTTAAATACTGACCATTGCCTTTATTTTGAAATTTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTGAAATTTTTTTAGAGTGAACTGG
* * *
72343380 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACTATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
72343445 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTT
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTT
72343483 AAAAACAATT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 95 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTGAAATTTTTTTAGAGTGAACTGG
Found at i:72344084 original size:3 final size:3
Alignment explanation
Indices: 72344078--72344265 Score: 133
Period size: 3 Copynumber: 63.7 Consensus size: 3
72344068 AGAAGACAAC
* *
72344078 AAT AAT AAT AAT -AT ATT AAT AA- AAT AAT AAT -AT AA- AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** ** *
72344122 AAT AA- AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT
* * * *
72344168 ATAT ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * *
72344213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT ATT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72344261 AAT AA
1 AAT AA
72344266 CACTCTCCCT
Statistics
Matches: 145, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
2 17 0.12
3 113 0.78
4 15 0.10
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72344551 original size:45 final size:45
Alignment explanation
Indices: 72344501--72344590 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
72344491 GAGAATAGAC
*
72344501 AAAGAAAACCTCTTTTGCTTTGATATTTGATTAATCTCAAAAAAA
1 AAAGAAAACCTATTTTGCTTTGATATTTGATTAATCTCAAAAAAA
* *
72344546 AAAGAAAACTTATTTTGCTTTGATATTTGATTAATCTCCAAAAAA
1 AAAGAAAACCTATTTTGCTTTGATATTTGATTAATCTCAAAAAAA
72344591 GAACTCCCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (45 bp):
AAAGAAAACCTATTTTGCTTTGATATTTGATTAATCTCAAAAAAA
Found at i:72344719 original size:29 final size:30
Alignment explanation
Indices: 72344671--72344740 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
72344661 TTTGTAGGCA
72344671 AGTGGGGTGATAGAGATAGT-GGATGATTT
1 AGTGGGGTGATAGAGATAGTGGGATGATTT
* * *
72344700 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATAGAGATAGTGGGATGATTT
*
72344730 AGTGGGTTGAT
1 AGTGGGGTGAT
72344741 TTAGTAGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (30 bp):
AGTGGGGTGATAGAGATAGTGGGATGATTT
Found at i:72344733 original size:13 final size:13
Alignment explanation
Indices: 72344694--72344751 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
72344684 AGATAGTGGA
72344694 TGATTTAGTGGGG
1 TGATTTAGTGGGG
72344707 TGATGGAGTTAGTGGGG
1 TGAT----TTAGTGGGG
*
72344724 TGATTTAGTGGGT
1 TGATTTAGTGGGG
*
72344737 TGATTTAGTAGGG
1 TGATTTAGTGGGG
72344750 TG
1 TG
72344752 TGGGGGTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 25 0.66
17 13 0.34
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (13 bp):
TGATTTAGTGGGG
Found at i:72345080 original size:13 final size:14
Alignment explanation
Indices: 72345055--72345096 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
72345045 TTATAATATG
72345055 TAAATTATATAAAA
1 TAAATTATATAAAA
72345069 TAAATT-TATAAAA
1 TAAATTATATAAAA
* *
72345082 -ACATTATACAAAA
1 TAAATTATATAAAA
72345095 TA
1 TA
72345097 TAAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 7 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTATATAAAA
Found at i:72346891 original size:26 final size:27
Alignment explanation
Indices: 72346862--72346913 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
72346852 GTTTTTGAGT
*
72346862 TTAAT-TTTAATGAGAACTTTTAAAAA
1 TTAATGTTTAATGAAAACTTTTAAAAA
* *
72346888 TTAATGTTTAATTAAAATTTTTAAAA
1 TTAATGTTTAATGAAAACTTTTAAAA
72346914 TTTTGTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (27 bp):
TTAATGTTTAATGAAAACTTTTAAAAA
Found at i:72346914 original size:26 final size:26
Alignment explanation
Indices: 72346862--72346915 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
72346852 GTTTTTGAGT
*
72346862 TTAATTTTAATGAGAACTTTTAAAAA
1 TTAATTTTAATGAGAAATTTTAAAAA
* *
72346888 TTAATGTTTAATTA-AAATTTTTAAAA
1 TTAAT-TTTAATGAGAAATTTTAAAAA
72346914 TT
1 TT
72346916 TTGTGTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (26 bp):
TTAATTTTAATGAGAAATTTTAAAAA
Found at i:72373828 original size:18 final size:19
Alignment explanation
Indices: 72373802--72373840 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
72373792 TTTCAATTCA
72373802 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
72373821 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
72373839 AT
1 AT
72373841 ATTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:72375170 original size:5 final size:5
Alignment explanation
Indices: 72375160--72375204 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
72375150 TTACTTATTT
* *
72375160 ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
72375205 TTTTAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:72376524 original size:29 final size:30
Alignment explanation
Indices: 72376492--72376550 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
72376482 TTATGTGTAT
*
72376492 AATTG-CATCAAATTAAAATTCATGTATAC
1 AATTGACATCAAATCAAAATTCATGTATAC
* *
72376521 AATTGCACATTAAATCAAAGTTCATGTATA
1 AATTG-ACATCAAATCAAAATTCATGTATA
72376551 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTGACATCAAATCAAAATTCATGTATAC
Found at i:72376553 original size:29 final size:27
Alignment explanation
Indices: 72376487--72376553 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
72376477 GAGTTTTATG
*
72376487 TGTATAATTGCATCAAATTAAAATTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
72376514 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
72376545 TGTATAATT
1 TGTATAATT
72376554 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 9 0.27
31 19 0.58
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:72377377 original size:20 final size:19
Alignment explanation
Indices: 72377326--72377378 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
72377316 ATTAATTTTG
*
72377326 TAATATTTTTTTATAATAT
1 TAATATTTTTTTAAAATAT
**
72377345 TAACT-TTCCTTTAAAATCAT
1 TAA-TATTTTTTTAAAAT-AT
72377365 TAATATTTTTTTAA
1 TAATATTTTTTTAA
72377379 TGAGTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATTTTTTTAAAATAT
Found at i:72382843 original size:7 final size:7
Alignment explanation
Indices: 72382827--72382940 Score: 201
Period size: 7 Copynumber: 16.3 Consensus size: 7
72382817 CCTATAATTA
72382827 TTAGGGT
1 TTAGGGT
*
72382834 TTATGGT
1 TTAGGGT
72382841 TTAGGGT
1 TTAGGGT
72382848 TTAGGGT
1 TTAGGGT
72382855 TTAGGGT
1 TTAGGGT
72382862 TTAGGGT
1 TTAGGGT
72382869 TTAGGGT
1 TTAGGGT
72382876 TTAGGGT
1 TTAGGGT
**
72382883 TTATAGT
1 TTAGGGT
72382890 TTAGGGT
1 TTAGGGT
72382897 TTAGGGT
1 TTAGGGT
72382904 TTAGGGT
1 TTAGGGT
72382911 TTAGGGT
1 TTAGGGT
72382918 TTAGGGT
1 TTAGGGT
72382925 TTAGGGT
1 TTAGGGT
72382932 TTAGGGT
1 TTAGGGT
72382939 TT
1 TT
72382941 TGTTAAAATT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 101 1.00
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:72390521 original size:6 final size:7
Alignment explanation
Indices: 72390499--72390530 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
72390489 AGAACTTTGA
72390499 TTTCTTTT
1 TTTC-TTT
72390507 TTTCTTT
1 TTTCTTT
72390514 TTTCTTT
1 TTTCTTT
72390521 TTTCTTT
1 TTTCTTT
72390528 TTT
1 TTT
72390531 GACATGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTCTTT
Found at i:72395401 original size:32 final size:32
Alignment explanation
Indices: 72395364--72395470 Score: 108
Period size: 32 Copynumber: 3.4 Consensus size: 32
72395354 TAAAGGAATA
72395364 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
* * * *
72395396 TTGTTATCATTTTACAAAATTGAAGTTGTAAT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
* * * * **
72395428 TTGTTACCGTTTCA-CAAATAAAAGTTGATGT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
*
72395459 TTATTATCATTT
1 TTGTTATCATTT
72395471 CACAGAACTG
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
31 20 0.34
32 39 0.66
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTAACCAAATTAAAGTTGAAAT
Found at i:72395790 original size:21 final size:21
Alignment explanation
Indices: 72395743--72395790 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
72395733 TTAATCAATT
*
72395743 TAAATTTTAAAACCCTAAACC
1 TAAACTTTAAAACCCTAAACC
* *
72395764 TTAACTTTAAGACCCT-AACC
1 TAAACTTTAAAACCCTAAACC
72395784 ATAAACT
1 -TAAACT
72395791 CTAACACAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAACTTTAAAACCCTAAACC
Found at i:72398934 original size:10 final size:10
Alignment explanation
Indices: 72398919--72398943 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
72398909 TTTACTATTC
72398919 AAAAAAATTA
1 AAAAAAATTA
72398929 AAAAAAATTA
1 AAAAAAATTA
72398939 AAAAA
1 AAAAA
72398944 TATTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:72405052 original size:14 final size:15
Alignment explanation
Indices: 72405028--72405062 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
72405018 ACAAGACTAA
*
72405028 ATTCTTTCTTCTTTC
1 ATTCCTTCTTCTTTC
72405043 -TTCCTTCTTCTTTC
1 ATTCCTTCTTCTTTC
72405057 ATTCCT
1 ATTCCT
72405063 GTACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTCCTTCTTCTTTC
Found at i:72413956 original size:24 final size:25
Alignment explanation
Indices: 72413912--72413961 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
72413902 TCCCTAAACT
*
72413912 AAAAGTCTATCTTGTTGTGGCCAAA
1 AAAAGTCTATCGTGTTGTGGCCAAA
72413937 AAAAGTTCTATCGTG-T-TGGCCAAA
1 AAAAG-TCTATCGTGTTGTGGCCAAA
72413961 A
1 A
72413962 TGAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (25 bp):
AAAAGTCTATCGTGTTGTGGCCAAA
Found at i:72426835 original size:38 final size:38
Alignment explanation
Indices: 72426793--72426869 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
72426783 AAGCTTAAGG
72426793 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
1 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
72426831 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
1 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
72426869 G
1 G
72426870 GACAACAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (38 bp):
GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
Found at i:72428618 original size:22 final size:22
Alignment explanation
Indices: 72428593--72428637 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
72428583 TGTGATGACG
72428593 TTATCTT-ATAAATAT-TATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
72428615 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
72428637 T
1 T
72428638 GGTTTGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:72433675 original size:30 final size:30
Alignment explanation
Indices: 72433641--72433703 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
72433631 ACTTATTCTA
72433641 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
72433671 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
72433701 TTG
1 TTG
72433704 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:72433863 original size:12 final size:12
Alignment explanation
Indices: 72433833--72433865 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
72433823 TATATATTTT
72433833 AAAATT-ATATA
1 AAAATTAATATA
72433844 AAAA-TAATATA
1 AAAATTAATATA
72433855 AAAATTAATAT
1 AAAATTAATAT
72433866 GGGCGGGCCG
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:72436899 original size:25 final size:24
Alignment explanation
Indices: 72436871--72436923 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
72436861 ATTAATAACG
* *
72436871 ATAAATGGTATTTAAATATTTTAAT
1 ATAAATGATA-TTAAATAATTTAAT
* *
72436896 ATAACTGATATTATATAATTTAAT
1 ATAAATGATATTAAATAATTTAAT
72436920 ATAA
1 ATAA
72436924 TTAGAAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (24 bp):
ATAAATGATATTAAATAATTTAAT
Found at i:72438409 original size:13 final size:13
Alignment explanation
Indices: 72438378--72438410 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
72438368 TAATCTCATT
72438378 ATTTTTTATTAAA
1 ATTTTTTATTAAA
*
72438391 ACTTTTTATT-AA
1 ATTTTTTATTAAA
72438403 ATTTTTTA
1 ATTTTTTA
72438411 GTGTGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTTATTAAA
Found at i:72438731 original size:23 final size:23
Alignment explanation
Indices: 72438689--72438732 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
72438679 CTTATCATGT
*
72438689 AAAAAAAATATAAATTTTAAAAA
1 AAAAAAAATATAAATATTAAAAA
72438712 AAAAAAAATATATAA-ATTAAA
1 AAAAAAAATATA-AATATTAAA
72438733 TCTCGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAAAATATAAATATTAAAAA
Found at i:72439555 original size:34 final size:34
Alignment explanation
Indices: 72439516--72439586 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
72439506 ATAATAAGGG
72439516 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
1 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
72439550 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
1 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
72439584 TTT
1 TTT
72439587 CAAGGGGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (34 bp):
TTTTAAAATTGATACAAGAGTTCATAGTCATATT
Found at i:72440657 original size:51 final size:51
Alignment explanation
Indices: 72440581--72440682 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
72440571 TTATTAGGTT
*
72440581 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACCCGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
72440632 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
72440683 AGTAAATGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (51 bp):
CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
Found at i:72448168 original size:18 final size:18
Alignment explanation
Indices: 72448147--72448194 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
72448137 TAATAAGAAT
*
72448147 TATTAAAATATTATTTCA
1 TATTAAAATATTATATCA
72448165 TATTTAAAATAAATTATATCA
1 TA-TTAAAAT--ATTATATCA
72448186 T-TTAAAATA
1 TATTAAAATA
72448195 AACCACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 14 0.54
21 9 0.35
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAAATATTATATCA
Found at i:72448879 original size:228 final size:227
Alignment explanation
Indices: 72448475--72449137 Score: 762
Period size: 228 Copynumber: 2.9 Consensus size: 227
72448465 CTTTGAAGAA
* * *
72448475 GATGCAGATCTTTGTGAAAACCCTTACCGGCAAGACCATAACACTCGAGGTCGAAAGCTCCGACA
1 GATGCAGATCTTTGTCAAAA-CCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * *
72448540 CCATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCCGACCAGCAGCGTCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* ** * * **
72448605 ATTTTCGCTGGCAAACAGCTCGAAGACGGTCGGACCCTT-GCTGATTATAACATCCAGAAAGAAT
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGA-CCTTGGCTGATTATAACATCCAGAAAGAAT
*
72448669 CCACCCTCCACCTCGTCTT-ACGCCTTCGTGG-GG
194 CCACCCTTCACCTCGTCTTGA-GCCTTCGTGGAGG
* * * *
72448702 GCATGCAAATCTTTGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGAC
* *
72448767 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAACAGCGTTT
64 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCT
* *
72448832 GATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAATATCCA-AAAGGAA
129 CATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAA-GAA
* * *
72448896 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
* * * * * * * * * *
72448931 GATGCAGATTTTTGTCAAGACTTTGACAGGCAAAACAATCACCTTGGAGGTTGAAAGCTCCGATA
1 GATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * * * * **
72448996 CCATTGACAATGTTAAGGCAAAGATTCAGGATAAGGAAGGAATCCCACCTGATCAGCA-AATGCT
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGT-CT
* * * *
72449060 CATC-TCTGCCGGCAAACAATTGGAAGATGGGAGGACTTTGGCTGATTATAACATTCAGAAAGAG
129 CATCTTC-GCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAA
*
72449124 TCTACCCTTCACCT
193 TCCACCCTTCACCT
72449138 TGTTCTTCGT
Statistics
Matches: 369, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
227 15 0.04
228 347 0.94
229 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (227 bp):
GATGCAGATCTTTGTCAAAACCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACAC
CATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
Done.