Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 204 of 378
Found at i:60355583 original size:29 final size:29
Alignment explanation
Indices: 60355543--60355647 Score: 122
Period size: 29 Copynumber: 3.7 Consensus size: 29
60355533 ATGTGACTGA
*
60355543 GCCTAACGGGCCATATAAATGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* *
60355572 GCCTAATGGGCCATATATAGGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* * *
60355601 GTCTAATGGGCCATATGAATATGA-TTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* * *
60355629 GCTTAGTAGGCCATATAAA
1 GCCTAATGGGCCATATAAA
60355648 GGTATGTGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
GCCTAATGGGCCATATAAATGTGATTTGG
Found at i:60356764 original size:17 final size:18
Alignment explanation
Indices: 60356731--60356765 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60356721 ATTTAAGAAG
*
60356731 GGTTTTCATTGAAAACAC
1 GGTTTTCACTGAAAACAC
60356749 GGTTTTCACT-AAAACAC
1 GGTTTTCACTGAAAACAC
60356766 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
GGTTTTCACTGAAAACAC
Found at i:60363372 original size:38 final size:38
Alignment explanation
Indices: 60363325--60363400 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
60363315 ACGACGTCCG
60363325 AAAGCCCCGTATGAACCTTAGGAATAGTTAGGATACAA
1 AAAGCCCCGTATGAACCTTAGGAATAGTTAGGATACAA
*
60363363 AAAGTCCCGTATGAACCTTAGGAATAGTTAGGATACAA
1 AAAGCCCCGTATGAACCTTAGGAATAGTTAGGATACAA
60363401 TGTCATGACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (38 bp):
AAAGCCCCGTATGAACCTTAGGAATAGTTAGGATACAA
Found at i:60367665 original size:56 final size:56
Alignment explanation
Indices: 60367565--60367673 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
60367555 ACCATGGCAT
* * * *
60367565 CGATATATGTGTGCGAGTAAGACCACGTTTTATACATTGACATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTGAGAAAGTGACATCGATATGTGACTC
* * *
60367621 CGATATATGTGTGTGAGTAAGACC-CTGTTTGGGAAAGTGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCAC-GTTTGAGAAAGTGACATCGATATGTGA
60367674 TTACATGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 1 0.02
56 44 0.98
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTGAGAAAGTGACATCGATATGTGACTC
Found at i:60368217 original size:18 final size:18
Alignment explanation
Indices: 60368194--60368238 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
60368184 ATGCTAAGTT
60368194 TGAGATTATATGTGATAA
1 TGAGATTATATGTGATAA
*
60368212 TGAGATTATATGTGATTA
1 TGAGATTATATGTGATAA
*
60368230 TGATATTAT
1 TGAGATTAT
60368239 TGTTTGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGAGATTATATGTGATAA
Found at i:60370211 original size:41 final size:41
Alignment explanation
Indices: 60370166--60370283 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
60370156 TGAAAGATAA
60370166 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
60370207 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60370237 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60370278 ATGTAG
1 ATGTAG
60370284 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:60370222 original size:71 final size:71
Alignment explanation
Indices: 60370134--60370297 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60370124 GAGATGTATC
60370134 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60370199 AGGACA
66 AGGACA
60370205 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60370270 AGGACA
66 AGGACA
60370276 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
60370298 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:60377754 original size:41 final size:41
Alignment explanation
Indices: 60377709--60377826 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
60377699 TGAAAGATAA
60377709 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
60377750 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60377780 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60377821 ATGTAG
1 ATGTAG
60377827 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:60377765 original size:71 final size:71
Alignment explanation
Indices: 60377677--60377840 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60377667 GAGATGTATC
60377677 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60377742 AGGACA
66 AGGACA
60377748 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60377813 AGGACA
66 AGGACA
60377819 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
60377841 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:60384525 original size:55 final size:56
Alignment explanation
Indices: 60384465--60384600 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
60384455 GAACATGGCA
* *
60384465 TCGATATATGTGTGCGAGTAAGACCATG-TTTATATGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCATGTTTTATATGTTAGCATCAATATGTGACT
* *
60384520 TCGATATATGTGTGCGAGTAAGATCATGTTTTATATGTTAGCATCAATATGTGGCT
1 TCGATATATGTGTGCGAGTAAGACCATGTTTTATATGTTAGCATCAATATGTGACT
* *
60384576 CCGATATATGTGTGTGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
60384601 TTGTATGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 27 0.37
56 46 0.63
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.36
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCATGTTTTATATGTTAGCATCAATATGTGACT
Found at i:60398731 original size:49 final size:49
Alignment explanation
Indices: 60398672--60398873 Score: 359
Period size: 49 Copynumber: 4.1 Consensus size: 49
60398662 GTACATAATA
60398672 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
60398721 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
60398770 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
60398819 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
60398868 ATATAT
1 ATATAT
60398874 ATGTGGTAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 147 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:60398997 original size:37 final size:36
Alignment explanation
Indices: 60398942--60399028 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
60398932 AACTTGGAAA
60398942 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
60398980 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
60399017 TATGTCCGGGTA
1 TATGTCCGGGTA
60399029 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:60404642 original size:39 final size:39
Alignment explanation
Indices: 60404567--60404725 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
60404557 AATTATATTA
* * *
60404567 CCAGCACAAAGCTTGCAGGACTTTAG-CCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
60404605 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
60404644 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* ** *
60404683 CCAGCATGAAGCCTATGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
60404722 CCAG
1 CCAG
60404726 TGTCTTGAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 22 0.20
39 89 0.80
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:60408543 original size:31 final size:31
Alignment explanation
Indices: 60408508--60408571 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60408498 CTTTTTCATG
60408508 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
60408539 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
60408570 TT
1 TT
60408572 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:60408814 original size:24 final size:24
Alignment explanation
Indices: 60408763--60408905 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
60408753 GCTTTATCAT
*
60408763 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
60408788 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
60408812 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
60408835 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
60408859 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
60408883 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
60408906 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60408842 original size:47 final size:48
Alignment explanation
Indices: 60408763--60408904 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
60408753 GCTTTATCAT
* *
60408763 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
60408812 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
* *
60408859 ATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
60408905 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 44 0.51
48 30 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:60408863 original size:71 final size:72
Alignment explanation
Indices: 60408762--60408905 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
60408752 TGCTTTATCA
*
60408762 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
60408827 GCCCTTT
66 GCCCTTT
* * ** *
60408834 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
60408897 AGCCCTTT
65 AGCCCTTT
60408905 T
1 T
60408906 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:60408980 original size:20 final size:20
Alignment explanation
Indices: 60408955--60409015 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
60408945 TTATGATTAC
60408955 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60408975 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
60408995 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
60409015 A
1 A
60409016 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60409090 original size:25 final size:25
Alignment explanation
Indices: 60409058--60409105 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60409048 ATACATAAAC
* * *
60409058 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
60409083 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
60409106 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:60410298 original size:27 final size:26
Alignment explanation
Indices: 60410263--60410340 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
60410253 GGGCATATTC
*
60410263 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACC-TACAGGGGTATTACG
60410290 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCACTTTACC-TACAGGGG-TATTACG
*
60410317 GTCACTTTACCTAATAGGGGTATT
1 GTCACTTTACCT-ACAGGGGTATT
60410341 TTAGTCATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.04
27 42 0.93
28 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGTATTACG
Found at i:60410411 original size:27 final size:27
Alignment explanation
Indices: 60410358--60410657 Score: 167
Period size: 27 Copynumber: 11.0 Consensus size: 27
60410348 TTTCATCCTA
* * * * * *
60410358 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
60410385 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
60410412 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* * *
60410441 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
60410468 CAAGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
60410495 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
60410521 CCAGTGGTATTTT-GATAATTTTACAAA-
1 CAAG-GGTATTTTAG-TAATTTTATAAAT
* * *
60410548 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
** * *
60410576 TGAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** *
60410603 CGAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
60410630 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
60410657 C
1 C
60410658 GACGGTAAAA
Statistics
Matches: 220, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.01
27 186 0.85
28 18 0.08
29 13 0.06
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:60410637 original size:81 final size:81
Alignment explanation
Indices: 60410463--60410718 Score: 194
Period size: 81 Copynumber: 3.2 Consensus size: 81
60410453 TGTAACTTTG
* *** *
60410463 TAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTG
1 TAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAG-G
** * *
60410527 GT-ATTTTGATAATTTTA
65 GTAAAATAG-TAATTCTA
* * * **
60410544 CAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTGTAAATCGAGG
1 TAAATC-AAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAGG
60410608 GTAAAATAGTAATTCTA
65 GTAAAATAGTAATTCTA
*** * * * * * *** *
60410625 TAAATCAAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAACAATAATTTTGTAAATCGAGGG
1 TAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAGGG
* *
60410690 TAAAACAGTAATTCTG
66 TAAAATAGTAATTCTA
* *
60410706 TAAGTCGAGGGTA
1 TAAATCAAGGGTA
60410719 AAACGGGGGT
Statistics
Matches: 138, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 130 0.94
82 7 0.05
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.36
Consensus pattern (81 bp):
TAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAGGG
TAAAATAGTAATTCTA
Found at i:60410664 original size:27 final size:27
Alignment explanation
Indices: 60410589--60410864 Score: 237
Period size: 27 Copynumber: 9.8 Consensus size: 27
60410579 GGGTATTTTT
* *
60410589 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
60410616 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
60410643 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
60410670 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
60410697 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* * **
60410733 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
* *
60410762 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
60410789 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
60410816 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
60410843 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
60410865 CTTTGGTAAT
Statistics
Matches: 206, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
27 183 0.89
36 1 0.00
38 22 0.11
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:60410729 original size:38 final size:38
Alignment explanation
Indices: 60410678--60410759 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
60410668 CAATAATTTT
* * *
60410678 GTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
* ** *
60410716 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
60410754 GTAAAA
1 GTAAAA
60410760 TGGTAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
Found at i:60410748 original size:92 final size:92
Alignment explanation
Indices: 60410633--60410816 Score: 260
Period size: 92 Copynumber: 2.0 Consensus size: 92
60410623 TATAAATCAA
* *
60410633 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAG
* * *
60410698 TAATTCTGTAAGTCGAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
* * ** ***
60410725 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAG
60410790 TAATTCTATAAATCAAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
60410817 TACTTCTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACGG
Found at i:60410757 original size:146 final size:146
Alignment explanation
Indices: 60410589--60410864 Score: 399
Period size: 146 Copynumber: 1.9 Consensus size: 146
60410579 GGGTATTTTT
* *
60410589 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
60410654 AATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTA
60410719 AAACGGGGGTAAAATG
131 AAACGGGGGTAAAATG
* * * *
60410735 GTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
* ** * * *
60410800 AATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTA
66 AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTA
60410865 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
146 113 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (146 bp):
GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTA
AAACGGGGGTAAAATG
Found at i:60410809 original size:119 final size:119
Alignment explanation
Indices: 60410597--60410843 Score: 314
Period size: 119 Copynumber: 2.1 Consensus size: 119
60410587 TTGTAATTTT
* * * *
60410597 GTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * *
60410662 GTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
* * ** * * * *
60410716 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * *
60410781 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
60410835 GTAAAACGG
1 GTAAAACGG
60410844 TAATTATGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.27
Consensus pattern (119 bp):
GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
Found at i:60410887 original size:54 final size:54
Alignment explanation
Indices: 60410725--60410891 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
60410715 GGTAAAACGG
* * *
60410725 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
* * * ** * * *
60410779 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
*** * *
60410833 GGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
60410887 GGGTA
1 GGGTA
60410892 TTTCAATACT
Statistics
Matches: 89, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
Found at i:60412304 original size:49 final size:49
Alignment explanation
Indices: 60412232--60412335 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
60412222 ACCATGGCTA
* * *
60412232 ATGAGATCCCGTGTAAGACCATGTCTGAGACATGGCATCGGCATCCAAG
1 ATGAGACCCCGTATAAGACCATGTCTGAGACATGGCATCGACATCCAAG
* *
60412281 ATGAGACCCCGTATAAGACCATGTCTGGGACATGGCGTCGACATCCAAG
1 ATGAGACCCCGTATAAGACCATGTCTGAGACATGGCATCGACATCCAAG
60412330 ATGAGA
1 ATGAGA
60412336 GTGTAACATC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (49 bp):
ATGAGACCCCGTATAAGACCATGTCTGAGACATGGCATCGACATCCAAG
Found at i:60412975 original size:25 final size:25
Alignment explanation
Indices: 60412928--60412991 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
60412918 GTTTTTAATG
* *
60412928 TTTTGATATTATGTGATAAATGTTT
1 TTTTGTTATTATGAGATAAATGTTT
* *
60412953 TTTTGTTATTATGAGTTATATGTTT
1 TTTTGTTATTATGAGATAAATGTTT
* * *
60412978 ATTGGTTAATATGA
1 TTTTGTTATTATGA
60412992 AAGCATAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (25 bp):
TTTTGTTATTATGAGATAAATGTTT
Found at i:60422673 original size:27 final size:28
Alignment explanation
Indices: 60422619--60422674 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
60422609 TTAGAATACT
*
60422619 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTTACTAAAAATACCGAAATACCC
* *
60422647 TTAGTTT-GTAAAAATACTGAAATACCC
1 TTAGTTTACTAAAAATACCGAAATACCC
60422674 T
1 T
60422675 CGATTTACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (28 bp):
TTAGTTTACTAAAAATACCGAAATACCC
Found at i:60422691 original size:27 final size:27
Alignment explanation
Indices: 60422669--60422851 Score: 178
Period size: 27 Copynumber: 6.8 Consensus size: 27
60422659 AATACTGAAA
*
60422669 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGATT
* *
60422696 TACCCTCGATTTATA-AATTACCG-TT
1 TACCCTCGATTTACAGAATTACTGATT
* *
60422721 TCACCCTTGATTTACAGAATTACTGTTT
1 T-ACCCTCGATTTACAGAATTACTGATT
* *
60422749 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GATT
* *
60422776 TACCGTCGATTTATAGAATTACT-ATTT
1 TACCCTCGATTTACAGAATTACTGA-TT
* * *
60422803 TTCTCTTGATTTACAGAATTACT-ATTT
1 TACCCTCGATTTACAGAATTACTGA-TT
*
60422830 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
60422852 AGAAATACCC
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.02
26 20 0.15
27 103 0.79
28 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGATT
Found at i:60422794 original size:54 final size:53
Alignment explanation
Indices: 60422669--60422851 Score: 224
Period size: 54 Copynumber: 3.4 Consensus size: 53
60422659 AATACTGAAA
*
60422669 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA-TAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA-CGTTT
* *
60422722 CACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA-CGTTT
* * * * * * * *
60422776 TACCGTCGATTTATAGAATTACTATTTTTCTCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC-GTTT
*
60422830 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
60422852 AGAAATACCC
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 39 0.35
54 72 0.65
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACGTTT
Found at i:60422839 original size:81 final size:80
Alignment explanation
Indices: 60422669--60422851 Score: 269
Period size: 81 Copynumber: 2.3 Consensus size: 80
60422659 AATACTGAAA
* *
60422669 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAATTACCGTTTCACCCTTGATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAATTACCATTTCACCCTTGATTT
*
60422734 ACAGAATTACTGTTT
66 ACAGAATTACTATTT
* * ** *
60422749 TACCCTCGATTTACAAAATTA-TCGTTTTACCGTCGATTTATAGAATTACTATTTTTCTCTTGAT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTATA-AATTACCATTTCACCCTTGAT
60422813 TTACAGAATTACTATTT
64 TTACAGAATTACTATTT
60422830 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
60422852 AGAAATACCC
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 38 0.41
81 53 0.58
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAATTACCATTTCACCCTTGATTT
ACAGAATTACTATTT
Found at i:60422860 original size:27 final size:27
Alignment explanation
Indices: 60422830--60422915 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
60422820 ATTACTATTT
*
60422830 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
60422857 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
60422884 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
60422911 TACCC
1 TACCC
60422916 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:60422877 original size:81 final size:81
Alignment explanation
Indices: 60422669--60422878 Score: 219
Period size: 81 Copynumber: 2.6 Consensus size: 81
60422659 AATACTGAAA
* *** * ** ** *
60422669 TACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTAT-AAATTACCGTTTCACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GAAATACCCTCAATTTATAAAATTACTATTTTTCTCTTGAT
*
60422732 TTACAGAATTACTGTTT
65 TTACAGAATTACTATTT
*** * * *
60422749 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTTTTCTCTTGATT
1 TACCCTCGATTTACAAAATTATCGAAATACCCTCAATTTATAAAATTACTATTTTTCTCTTGATT
60422814 TACAGAATTACTATTT
66 TACAGAATTACTATTT
*
60422830 TACCCTCGATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTATC-GAAATACCCTCAATTTATAAAATTAC
60422879 CAAAATACCC
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 38 0.34
81 73 0.66
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGAAATACCCTCAATTTATAAAATTACTATTTTTCTCTTGATT
TACAGAATTACTATTT
Found at i:60422902 original size:54 final size:52
Alignment explanation
Indices: 60422844--60422969 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 52
60422834 CTCGATTTAC
* **
60422844 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATA-CCCT-GTAGGGT
** *
60422898 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCTGTAGGGT
*
60422951 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
60422970 TGTGGGGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
52 4 0.07
53 21 0.34
54 33 0.54
55 3 0.05
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.28
Consensus pattern (52 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCTGTAGGGT
Found at i:60422922 original size:27 final size:27
Alignment explanation
Indices: 60422844--60422942 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
60422834 CTCGATTTAC
*
60422844 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
*
60422871 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
60422898 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
60422925 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
60422943 TGTAGGGTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:60422964 original size:26 final size:27
Alignment explanation
Indices: 60422925--60422985 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
60422915 CATGGTTTGA
60422925 AAAATTACTAAAATACCC-TGTAGGGT
1 AAAATTACTAAAATACCCTTGTAGGGT
* *
60422951 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCTTGTAGGGT
60422978 AAAATTAC
1 AAAATTAC
60422986 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGTAGGGT
Found at i:60423630 original size:28 final size:28
Alignment explanation
Indices: 60423598--60423666 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
60423588 GCGTAGATCA
60423598 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
60423626 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
60423654 CGATA-TACCCCTA
1 CGAAATTACCCCTA
60423667 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:60426902 original size:27 final size:27
Alignment explanation
Indices: 60426850--60426902 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
60426840 TTTAGTTTAC
* *
60426850 TAAAATTACCGAAATACCCTTAATTTG
1 TAAAAATACCGAAATACCCTCAATTTG
* *
60426877 TAAAAATACTGAAATACCCTCGATTT
1 TAAAAATACCGAAATACCCTCAATTT
60426903 ACAGAATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAAATACCGAAATACCCTCAATTTG
Found at i:60426913 original size:27 final size:27
Alignment explanation
Indices: 60426891--60427101 Score: 176
Period size: 27 Copynumber: 7.8 Consensus size: 27
60426881 AATACTGAAA
* *
60426891 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGATT
* * * *
60426918 TACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGATT
* * *
60426945 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGATT
*
60426972 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GATT
* *
60426999 TACCATCGATTTATAAAATTACT-ATTT
1 TACCCTCGATTTACAAAATTACTGA-TT
* * * *
60427026 TTCTCTTGATTTACAGAATTACT-ATTT
1 TACCCTCGATTTACAAAATTACTGA-TT
* **
60427053 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTCGATTTACAAAATTACTGATT
* **
60427080 TACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTAC
60427102 CAGAATACCC
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 147 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGATT
Found at i:60426922 original size:54 final size:54
Alignment explanation
Indices: 60426864--60426989 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
60426854 ATTACCGAAA
* * *
60426864 TACCCTTAATTTGTAAAAATACTGAAATACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTATAAAAATACCGAAATACCCTCGATTTACAGAATTACTGTTT
* *** *
60426918 TACCCTCAATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTATAAAAATACCGAAATACCCTCGATTTACAGAATTACTGTTT
* *
60426972 TACCCTCGATTTACAAAA
1 TACCCTCAATTTATAAAA
60426990 TTATCGTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTATAAAAATACCGAAATACCCTCGATTTACAGAATTACTGTTT
Found at i:60426985 original size:81 final size:81
Alignment explanation
Indices: 60426891--60427103 Score: 293
Period size: 81 Copynumber: 2.6 Consensus size: 81
60426881 AATACTGAAA
* *
60426891 TACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATT
*
60426956 TACAGAATTACTGTTT
66 TACAGAATTACTATTT
* * * * *
60426972 TACCCTCGATTTACAAAATTA-TCGTTTTACCATCGATTTATAAAATTACTATTTTTCTCTTGAT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGAT
60427036 TTACAGAATTACTATTT
65 TTACAGAATTACTATTT
* *** *
60427053 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCA
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCAATTTATAAAATTACCA
60427104 GAATACCCCT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 113 0.99
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATT
TACAGAATTACTATTT
Found at i:60426990 original size:54 final size:54
Alignment explanation
Indices: 60426891--60427074 Score: 233
Period size: 54 Copynumber: 3.4 Consensus size: 54
60426881 AATACTGAAA
* * *
60426891 TACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
* * *
60426945 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
* * * * * * * **
60426999 TACCATCGATTTATAAAATTACTATTTTTCTCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
60427053 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
60427075 AGAAATACCC
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:60427100 original size:54 final size:55
Alignment explanation
Indices: 60426891--60427101 Score: 196
Period size: 54 Copynumber: 3.9 Consensus size: 55
60426881 AATACTGAAA
* * *
60426891 TACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTATAAAATTAC-CGTTT
1 TACCCTCGATTTACAAAATTACAGTTTTACCCTCAATTTATAAAATTACTCATTT
* * * * * *
60426945 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACAGTTTTACCCTCAATTTATAAAATTACTCATTT
* * * * ** * *
60426999 TACCATCGATTTATAAAATTACTA-TTTTTCTCTTGATTTACAGAATTACT-ATTT
1 TACCCTCGATTTACAAAATTAC-AGTTTTACCCTCAATTTATAAAATTACTCATTT
*** *
60427053 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACAGTTTTACCCTCAATTTATAAAATTAC
60427102 CAGAATACCC
Statistics
Matches: 128, Mismatches: 25, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 126 0.98
55 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (55 bp):
TACCCTCGATTTACAAAATTACAGTTTTACCCTCAATTTATAAAATTACTCATTT
Found at i:60427108 original size:27 final size:27
Alignment explanation
Indices: 60427053--60427138 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
60427043 ATTACTATTT
* **
60427053 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAG-AA
60427080 TACCCTCAATTTGTAAAATTACCAGAA
1 TACCCTCAATTTGTAAAATTACCAGAA
* *
60427107 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAGAA
60427134 TACCC
1 TACCC
60427139 ATGGTTTGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 48 0.92
28 3 0.06
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAGAA
Found at i:60427125 original size:54 final size:53
Alignment explanation
Indices: 60427067--60427193 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 53
60427057 CTCGATTTAC
* * **
60427067 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAGAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
60427121 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
60427175 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
60427194 TGTGGGGTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
53 4 0.07
54 54 0.89
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.28
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:60427145 original size:27 final size:27
Alignment explanation
Indices: 60427067--60427165 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
60427057 CTCGATTTAC
*
60427067 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
* *
60427094 AAAATTACCAGAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
60427121 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
60427148 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
60427166 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
27 60 0.95
28 3 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:60427178 original size:27 final size:27
Alignment explanation
Indices: 60427148--60427209 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
60427138 CATGGTTTGA
60427148 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
60427175 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
60427202 AAAATTAC
1 AAAATTAC
60427210 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:60427890 original size:27 final size:28
Alignment explanation
Indices: 60427825--60427920 Score: 169
Period size: 27 Copynumber: 3.5 Consensus size: 28
60427815 GCGTAGATCA
60427825 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
60427853 CGAAATTACCCCTAAAGAGCAAAATT-C
1 CGAAATTACCCCTAAAGAGCAAAATTAC
60427880 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
60427908 CGATA-TACCCCTA
1 CGAAATTACCCCTA
60427921 GGGTTTTAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 35 0.53
28 31 0.47
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:60430576 original size:46 final size:45
Alignment explanation
Indices: 60430508--60430636 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 45
60430498 TATTTCGGCA
* *
60430508 TCCGAACTCGTT-AGGTTAAGTCCGAGTTCACTTATGGATGTGAAC
1 TCCGAACTCGTTGA-GTTGAGTCCGAGTTCACTTATGGATGCGAAC
* *
60430553 GTCCGAACTCTTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
* *
60430599 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60430637 GTGGGTTACA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.03
46 70 0.96
47 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
Found at i:60432404 original size:18 final size:18
Alignment explanation
Indices: 60432381--60432438 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
60432371 AGCCCATTTT
60432381 AGTAACAGTAATCAATGC
1 AGTAACAGTAATCAATGC
*
60432399 AGTAACCA-TGATCAATGC
1 AGTAA-CAGTAATCAATGC
* * *
60432417 AATAATAGTAATCAGTGC
1 AGTAACAGTAATCAATGC
60432435 AGTA
1 AGTA
60432439 TGCAAGTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (18 bp):
AGTAACAGTAATCAATGC
Found at i:60434173 original size:45 final size:45
Alignment explanation
Indices: 60434124--60434293 Score: 188
Period size: 44 Copynumber: 3.8 Consensus size: 45
60434114 TGGTTGAGCA
60434124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
60434169 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
* *
60434214 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
60434262 --CGAGCTCGTTGAGTTGAGTGCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60434294 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 31 0.29
45 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:60434238 original size:47 final size:46
Alignment explanation
Indices: 60434121--60434291 Score: 160
Period size: 45 Copynumber: 3.8 Consensus size: 46
60434111 GGATGGTTGA
*
60434121 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
60434168 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* *
60434211 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
* * *
60434260 -C--GCGAGCTCGTTGAGTTGAGTGCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
60434292 TAGGGGCGGG
Statistics
Matches: 105, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 29 0.28
45 30 0.29
46 1 0.01
47 30 0.29
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:60434544 original size:19 final size:20
Alignment explanation
Indices: 60434507--60434544 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60434497 ATAAGGTGGT
60434507 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
60434527 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
60434545 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:60441778 original size:47 final size:46
Alignment explanation
Indices: 60441661--60441833 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
60441651 GGATGGTTGA
*
60441661 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
60441708 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
60441751 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
60441801 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
60441834 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 29 0.27
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:60441829 original size:46 final size:45
Alignment explanation
Indices: 60441665--60441835 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
60441655 GGTTGAGCAT
* *
60441665 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
60441710 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
*
60441755 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
60441803 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60441836 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:60442095 original size:19 final size:20
Alignment explanation
Indices: 60442058--60442095 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60442048 ATAAGGTGGT
60442058 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
60442078 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
60442096 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:60444522 original size:26 final size:24
Alignment explanation
Indices: 60444463--60444523 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
60444453 GTTTACTATG
60444463 GCACTATGTGTGCGAGTGTGACGA
1 GCACTATGTGTGCGAGTGTGACGA
60444487 GCACTATGTGTGCGAGTGTGACGA
1 GCACTATGTGTGCGAGTGTGACGA
60444511 GCACTATGTGTGC
1 GCACTATGTGTGC
60444524 AAATTTGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTGACGA
Found at i:60452027 original size:2 final size:2
Alignment explanation
Indices: 60452020--60452045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60452010 TAATATACAA
60452020 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
60452046 GTATGTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60454346 original size:23 final size:23
Alignment explanation
Indices: 60454320--60454369 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
60454310 ACCCCATGCA
60454320 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
60454343 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
60454366 ATGC
1 ATGC
60454370 TCAAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:60454488 original size:27 final size:26
Alignment explanation
Indices: 60454436--60454508 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
60454426 TTATAGTCAT
*
60454436 TTTACCCTAT-AGGGTATTTCGGTCA
1 TTTACCCTATGAGGGTATTTCGATCA
60454461 TTCTACCCTATGAGGGTATTTCGATCA
1 TT-TACCCTATGAGGGTATTTCGATCA
60454488 TTTCACCCTATGAGGGTATTT
1 TTT-ACCCTATGAGGGTATTT
60454509 TTGTCATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 2 0.05
26 9 0.20
27 33 0.75
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (26 bp):
TTTACCCTATGAGGGTATTTCGATCA
Found at i:60454515 original size:27 final size:27
Alignment explanation
Indices: 60454420--60454517 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
60454410 TTACCTTACC
* *
60454420 AGGGTATTATAGTCATTTTACCCTAT-
1 AGGGTATTTTAGTCATTTCACCCTATG
**
60454446 AGGGTATTTCGGTCA-TTCTACCCTATG
1 AGGGTATTTTAGTCATTTC-ACCCTATG
*
60454473 AGGGTA-TTTCGATCATTTCACCCTATG
1 AGGGTATTTTAG-TCATTTCACCCTATG
*
60454500 AGGGTATTTTTGTCATTT
1 AGGGTATTTTAGTCATTT
60454518 TATCACATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.03
26 22 0.37
27 29 0.48
28 7 0.12
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTAGTCATTTCACCCTATG
Found at i:60468460 original size:27 final size:27
Alignment explanation
Indices: 60468430--60468515 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
60468420 GGTATTTTGC
60468430 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
*
60468457 TAA-TTT-CATAATCGGGGGTATTTC-G
1 TAATTTTACA-AATCGAGGGTATTTCAG
* *
60468482 ATAATTTTACAAATCGAGGGTATTTTAA
1 -TAATTTTACAAATCGAGGGTATTTCAG
60468510 TAATTT
1 TAATTT
60468516 CTCTTTAGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 3 0.06
26 20 0.40
27 25 0.50
28 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:60468476 original size:26 final size:25
Alignment explanation
Indices: 60468438--60468516 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 25
60468428 GCTAATTTTA
60468438 CAAATCGAGGGTATTTCAGTAATTT
1 CAAATCGAGGGTATTTCAGTAATTT
*
60468463 CATAATCGGGGGTATTTC-GATAATTTT
1 CA-AATCGAGGGTATTTCAG-TAA-TTT
* *
60468490 ACAAATCGAGGGTATTTTAATAATTT
1 -CAAATCGAGGGTATTTCAGTAATTT
60468516 C
1 C
60468517 TCTTTAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
25 4 0.09
26 20 0.44
27 19 0.42
28 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (25 bp):
CAAATCGAGGGTATTTCAGTAATTT
Found at i:60468876 original size:28 final size:28
Alignment explanation
Indices: 60468832--60468895 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
60468822 TGGCCCCTTT
* *
60468832 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* * *
60468860 AGGCCCAATCACATTCATATTGCCCATT
1 AGGCCCAATCACATTCACATGGCCCATC
*
60468888 AGGTCCAA
1 AGGCCCAA
60468896 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:60470077 original size:5 final size:5
Alignment explanation
Indices: 60470067--60470091 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60470057 GTAAGAAGGG
60470067 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
60470092 CATGATGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:60475795 original size:26 final size:26
Alignment explanation
Indices: 60475739--60475861 Score: 174
Period size: 27 Copynumber: 4.6 Consensus size: 26
60475729 CCCTTAATCA
* *
60475739 GGTAAAATGAACAAAATACACCCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
*
60475766 GGTAAAATGACCGAAATACCCCATAA
1 GGTAAAATGACCGAAATACCCCATAG
*
60475792 GGTAAAATGACCCAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
*
60475819 GGTAAAATAACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCC-CATAG
60475846 GGTAAAATGACCGAAA
1 GGTAAAATGACCGAAA
60475862 ATCCCTAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 27 0.31
27 58 0.67
28 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.16
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:60475819 original size:53 final size:54
Alignment explanation
Indices: 60475738--60475863 Score: 184
Period size: 53 Copynumber: 2.3 Consensus size: 54
60475728 ACCCTTAATC
* *
60475738 AGGTAAAATGAACAAAATACACCCATAGGGTAAAATGACCGAAATACCC-CATA
1 AGGTAAAATGACCAAAATACACCCATAGGGTAAAATAACCGAAATACCCTCATA
*
60475791 AGGTAAAATGACCCAAATAC-CCCTATAGGGTAAAATAACCGAAATACCCTCATA
1 AGGTAAAATGACCAAAATACACCC-ATAGGGTAAAATAACCGAAATACCCTCATA
*
60475845 GGGTAAAATGACCGAAAAT
1 AGGTAAAATGACC-AAAAT
60475864 CCCTAAAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 3 0.05
53 42 0.65
54 16 0.25
55 4 0.06
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (54 bp):
AGGTAAAATGACCAAAATACACCCATAGGGTAAAATAACCGAAATACCCTCATA
Found at i:60475882 original size:26 final size:26
Alignment explanation
Indices: 60475738--60475882 Score: 148
Period size: 27 Copynumber: 5.5 Consensus size: 26
60475728 ACCCTTAATC
* * *
60475738 AGGTAAAATGAACAAAATACACCCATA
1 AGGTAAAATGACCGAAATAC-CCTATA
* *
60475765 GGGTAAAATGACCGAAATACCCCATA
1 AGGTAAAATGACCGAAATACCCTATA
*
60475791 AGGTAAAATGACCCAAATACCCCTATA
1 AGGTAAAATGACCGAAATA-CCCTATA
* *
60475818 GGGTAAAATAACCGAAATACCCTCATA
1 AGGTAAAATGACCGAAATACCCT-ATA
* *
60475845 GGGTAAAATGACCGAAA-ATCCCTAAA
1 AGGTAAAATGACCGAAATA-CCCTATA
*
60475871 AGGTATAATGAC
1 AGGTAAAATGAC
60475883 TGTAATTCCC
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
26 40 0.39
27 62 0.61
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (26 bp):
AGGTAAAATGACCGAAATACCCTATA
Found at i:60475906 original size:80 final size:80
Alignment explanation
Indices: 60475752--60475906 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
60475742 AAAATGAACA
*
60475752 AAATACACCCATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGACCCAAATACCCCTAT
1 AAATACACCCATAGGGTAAAATGACCGAAATACCCCAAAAGGTAAAATGACCCAAATACCCCTAT
**
60475817 AGGGTAAAATAACCG
66 AGGACAAAATAACCG
* * *** *
60475832 AAATAC-CCTCATAGGGTAAAATGACCGAAA-ATCCCTAAAAGGTATAATGACTGTAATTCCCCT
1 AAATACACC-CATAGGGTAAAATGACCGAAATA-CCCCAAAAGGTAAAATGACCCAAATACCCCT
*
60475895 CTAGGACAAAAT
64 ATAGGACAAAAT
60475907 GACTATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.05
80 60 0.95
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (80 bp):
AAATACACCCATAGGGTAAAATGACCGAAATACCCCAAAAGGTAAAATGACCCAAATACCCCTAT
AGGACAAAATAACCG
Found at i:60476953 original size:27 final size:26
Alignment explanation
Indices: 60476923--60477048 Score: 162
Period size: 27 Copynumber: 4.7 Consensus size: 26
60476913 ACCCTTTATC
60476923 GGTAAAATGACCGAAATACACCCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
* * *
60476950 GGTAACATGACCAAAATACACCCATAC
1 GGTAAAATGACCGAAATAC-CCCATAG
*
60476977 GGTAAAAAGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
*
60477004 GGTAAATTGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCC-CATAG
*
60477031 GGTAAAATGACTGAAATA
1 GGTAAAATGACCGAAATA
60477049 TCCCTAAATG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.03
27 82 0.95
28 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:60477061 original size:27 final size:27
Alignment explanation
Indices: 60476923--60477095 Score: 138
Period size: 27 Copynumber: 6.4 Consensus size: 27
60476913 ACCCTTTATC
*
60476923 GGTAAAATGACCGAAATA-CACCCATAG
1 GGTAAAATGACCGAAATATC-CCTATAG
* * * *
60476950 GGTAACATGACCAAAATA-CACCCATAC
1 GGTAAAATGACCGAAATATC-CCTATAG
* *
60476977 GGTAAAAAGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATATCCCTATAG
*
60477004 GGTAAATTGACCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATATCCCT-ATAG
* * *
60477031 GGTAAAATGACTGAAATATCCCTAAAT
1 GGTAAAATGACCGAAATATCCCTATAG
* * * *
60477058 GGTATAATGACTGTAAT-TCCCCTCTAG
1 GGTAAAATGACCGAAATAT-CCCTATAG
*
60477085 GGAAAAATGAC
1 GGTAAAATGAC
60477096 TATTTTGCCT
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.04
27 111 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATATCCCTATAG
Found at i:60480912 original size:27 final size:26
Alignment explanation
Indices: 60480871--60480990 Score: 132
Period size: 27 Copynumber: 4.5 Consensus size: 26
60480861 ACCCTTAATC
*
60480871 GGGTAAAATGACCGAAATACACCCATA
1 GGGTAAAATGACCGAAATAC-CCTATA
* *
60480898 CGATAAAATGACCGAAATACCTCTATA
1 GGGTAAAATGACCGAAATACC-CTATA
*
60480925 GGGTAAAATGACCAAAATACCCTTATA
1 GGGTAAAATGACCGAAATACCC-TATA
* *
60480952 GGGTAAAATGATCGAAATATCCTTATA
1 GGGTAAAATGACCGAAATA-CCCTATA
* *
60480979 AGGTATAATGAC
1 GGGTAAAATGAC
60480991 TATAATTCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.03
27 74 0.95
28 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (26 bp):
GGGTAAAATGACCGAAATACCCTATA
Found at i:60480959 original size:54 final size:54
Alignment explanation
Indices: 60480871--60481017 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 54
60480861 ACCCTTAATC
* * * *
60480871 GGGTAAAATGACCGAAATACACC-CATACGATAAAATGACCGAAATA-CCTCTATA
1 GGGTAAAATGACCAAAATAC-CCTTATAGGGTAAAATGACCGAAATATCCT-TATA
*
60480925 GGGTAAAATGACCAAAATACCCTTATAGGGTAAAATGATCGAAATATCCTTATA
1 GGGTAAAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATATCCTTATA
* * * * * * *
60480979 AGGTATAATGACTATAATTCCCTTGTAGGGAAAAATGAC
1 GGGTAAAATGACCAAAATACCCTTATAGGGTAAAATGAC
60481018 TGTTTTGCCC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.03
54 73 0.94
55 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (54 bp):
GGGTAAAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATATCCTTATA
Found at i:60481504 original size:34 final size:34
Alignment explanation
Indices: 60481455--60481536 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
60481445 TATTGAGGTG
60481455 GGCTTAGGCCCAGACTGTTTACTGATACTAA-ATA
1 GGCTTAGGCCCAGACTG-TTACTGATACTAATATA
* * * *
60481489 GGCTAAGGCCTAGACTGTTACTGTTACTAATATG
1 GGCTTAGGCCCAGACTGTTACTGATACTAATATA
60481523 GGCTTAGGCCCAGA
1 GGCTTAGGCCCAGA
60481537 ATGTATTCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 12 0.29
34 29 0.71
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (34 bp):
GGCTTAGGCCCAGACTGTTACTGATACTAATATA
Found at i:60494475 original size:51 final size:51
Alignment explanation
Indices: 60494384--60494508 Score: 126
Period size: 51 Copynumber: 2.5 Consensus size: 51
60494374 TCGATCACAT
* * * * * * *
60494384 GTGTGGTGCTAAGTGTAGGCCACTATGTGTAAAATATAGCTTGG-GTCATAA
1 GTGTGGTACTATGTGAAGGCCACTATGTGAAAAAGATAGCTTGGACT-ACAA
* * *
60494435 GTGTGGTACTATGTGAAGGCCACTTTGTGAAAAAGGTAGCTTTGACTACAA
1 GTGTGGTACTATGTGAAGGCCACTATGTGAAAAAGATAGCTTGGACTACAA
* *
60494486 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTATGTGAAGGCCAC
60494509 CAGGCATCCG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.29
Consensus pattern (51 bp):
GTGTGGTACTATGTGAAGGCCACTATGTGAAAAAGATAGCTTGGACTACAA
Found at i:60496428 original size:40 final size:40
Alignment explanation
Indices: 60496383--60496550 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
60496373 CGGAATATAA
60496383 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
60496423 CCGGATAAAATGTCTCGCACGAATGCCTTCCGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
60496463 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
60496503 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
60496543 CCGGATAT
1 CCGGATAT
60496551 CATTCAATTT
Statistics
Matches: 99, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60500116 original size:50 final size:49
Alignment explanation
Indices: 60500059--60500158 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
60500049 CTGCTAGAAG
*** * *
60500059 CAAAATATTATGGTTGTGTCACCAGATAATTGTAGATATACTGCCAGATA
1 CAAAATATTATGGTCAAGCCACCAGA-AATTGCAGATATACTGCCAGATA
* *
60500109 CAAAATATTTTGGTCAAGCCACCAGAAATTGCAGATATACTGCTAGATA
1 CAAAATATTATGGTCAAGCCACCAGAAATTGCAGATATACTGCCAGATA
60500158 C
1 C
60500159 TTCCTCTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 22 0.51
50 21 0.49
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (49 bp):
CAAAATATTATGGTCAAGCCACCAGAAATTGCAGATATACTGCCAGATA
Found at i:60500984 original size:296 final size:294
Alignment explanation
Indices: 60500451--60501336 Score: 1378
Period size: 296 Copynumber: 3.0 Consensus size: 294
60500441 AAGACTCATC
* * * * *
60500451 GATCATATAATCCTTGTAGATCATTAAATCTCTCTGCTCCTTCACCGAGATTTATCATCGATTTC
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
* * *
60500516 ATTGTGTTATTGAGTAGTGTAAGTACATGAGAAATATTAAGAATATTTTTTTCTCTTTATATTTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
*
60500581 TCCCTCATAGCTGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGT
131 TCCCTCATAGC-CAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGT
*
60500646 TCTTTAAAGGACCAAATGATGCCAATCTTGAAAAATATTAGTGTAACAACAAGGGCATCAAATCC
195 TCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATCC
* *
60500711 AGGTTTTGGTCTAAGGGTAAGTAGTTGGTGAGATT
260 AAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
* * * *
60500746 GATCATATAATCCTTGTAGATCGTTAAGCCTCTCTGCTCATTTATTGAGATTCATCATCGATTTT
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
*
60500811 GTTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTTCTCTTTATATTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATA-TTTTTTTCTCTTTATATTT
*
60500876 TTCCCTCATAGCCAAATGGTATTAAGGTACTTTCATTCTTCATGTGTTGACATCTTGTACCTATG
130 TTCCCTCATAGCC-AATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATG
* * * *
60500941 TTCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAATAAGAAGGGAACCAAATC
194 TTCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATC
* *
60501006 CAAGTTTTGATCTAAGGGAAAGTAGTTGGTGAGATC
259 CAAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
* ** * * *
60501042 AATCATATAATCCTTCCAGATTGTTAAACCTTTCTACTCCTTCACTGAGATTCATCATCGATTTT
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
60501107 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
*
60501172 TCCCTCATAGTCCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATGT
131 TCCCTCATAG-CCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGT
* * * * * *
60501237 TCTTTGAAGGACCAAACGACGCCAATCTAG-AAAATCATTAATGTGACAACGAGGGCATCAAATC
195 TCTTTAAAGGACCAAATGATGCCAATCTAGAAAAAT-ATTAGTGTAACAACAAGGGCATCAAATC
*
60501301 CAAGTTTTGATCTAAGGGTAAGTAGTTCGTGAGATT
259 CAAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
60501337 TTTTTCAATA
Statistics
Matches: 537, Mismatches: 50, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
294 5 0.01
295 258 0.48
296 274 0.51
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (294 bp):
GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
TCCCTCATAGCCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
CTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATCCA
AGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
Found at i:60502032 original size:47 final size:48
Alignment explanation
Indices: 60501979--60502069 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
60501969 TTATTTGCGA
*** *
60501979 TTATGTGGCCG-TTATCGTCAATTATGTGGTGGCTTGTCCACAATGTG
1 TTATGTGGCCGTTTATCAAAAATTATGTGGTGGCTTCTCCACAATGTG
*
60502026 TTATGTGGCTGTTTATCAAAAATTATGTGGTGGCTTCTCCACAA
1 TTATGTGGCCGTTTATCAAAAATTATGTGGTGGCTTCTCCACAA
60502070 ATGGTGTGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 10 0.26
48 28 0.74
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (48 bp):
TTATGTGGCCGTTTATCAAAAATTATGTGGTGGCTTCTCCACAATGTG
Found at i:60503191 original size:47 final size:47
Alignment explanation
Indices: 60503137--60503231 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
60503127 GTCACAATAA
** *
60503137 TGTAGATAAACTGTAACTTTATAATATTGTGGACAAGCCACCACTTT
1 TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
* *
60503184 TGTAGATAAACTACCACATTATAATATTGTGGACAAGCTACCACTTT
1 TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
60503231 T
1 T
60503232 TCAGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (47 bp):
TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
Found at i:60509537 original size:22 final size:22
Alignment explanation
Indices: 60509512--60509561 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
60509502 GTGGTGCAAG
60509512 GGTGGTGAT-ACGGTGGTGATAT
1 GGTGGT-ATGACGGTGGTGATAT
**
60509534 GGTGGTATGGTGGTGGTGATAT
1 GGTGGTATGACGGTGGTGATAT
*
60509556 AGTGGT
1 GGTGGT
60509562 TGTATGGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.16, C:0.02, G:0.48, T:0.34
Consensus pattern (22 bp):
GGTGGTATGACGGTGGTGATAT
Found at i:60509569 original size:22 final size:22
Alignment explanation
Indices: 60509523--60509573 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
60509513 GTGGTGATAC
* *
60509523 GGTGGTGATATGGTGGTATGGT
1 GGTGGTGATATAGTGGTATGAT
60509545 GGTGGTGATATAGTGGT-TGTAT
1 GGTGGTGATATAGTGGTATG-AT
60509567 GGTGGTG
1 GGTGGTG
60509574 TTTTGATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (22 bp):
GGTGGTGATATAGTGGTATGAT
Found at i:60516377 original size:24 final size:24
Alignment explanation
Indices: 60516349--60516398 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
60516339 TATTCATTGG
*
60516349 AAAGATAGATGAGAGCATTATCCA
1 AAAGATAGATGAGAGAATTATCCA
*
60516373 AAAGATCGATGAGAGAATTATCCA
1 AAAGATAGATGAGAGAATTATCCA
60516397 AA
1 AA
60516399 TTCTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (24 bp):
AAAGATAGATGAGAGAATTATCCA
Found at i:60517342 original size:27 final size:27
Alignment explanation
Indices: 60517312--60517413 Score: 177
Period size: 27 Copynumber: 3.8 Consensus size: 27
60517302 GTTATACATG
*
60517312 CCACGAATCTGTGATAGTGTGATGTCT
1 CCACGAATCTGTGATAATGTGATGTCT
*
60517339 CCACGGATCTGTGATAATGTGATGTCT
1 CCACGAATCTGTGATAATGTGATGTCT
*
60517366 CCACGAATCTGTGATAGTGTGATGTCT
1 CCACGAATCTGTGATAATGTGATGTCT
60517393 CCACGAATCTGTGATAATGTG
1 CCACGAATCTGTGATAATGTG
60517414 TAAAAGCCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (27 bp):
CCACGAATCTGTGATAATGTGATGTCT
Found at i:60520245 original size:43 final size:43
Alignment explanation
Indices: 60520098--60520247 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
60520088 TATCTGAGAT
* * *
60520098 ATGGTCTTACA-TTTATCACATATTGATGCCAATAG-CCCAG-C
1 ATGGTCTTACACATAATCACATAATGATGCCAAT-GTCCCAGAC
* * * * **
60520139 AATGGTCTTACACAAAATTAAATAACGATGCCAATGTTGCAGAC
1 -ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* *
60520183 AAGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
60520226 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
60520248 CTCGTTAATC
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 12 0.14
43 73 0.85
44 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
Found at i:60523174 original size:48 final size:48
Alignment explanation
Indices: 60523096--60523319 Score: 324
Period size: 48 Copynumber: 4.7 Consensus size: 48
60523086 CATGGTTAAC
* *
60523096 GAGAGTCAGTGTAAGACCTTGTCTGGGACATGGCATC-AGTGTTGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-TGTTGATAT
* *
60523144 GTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGATAT
* * ** *
60523192 GAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCGTCGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGATAT
* * *
60523240 AAGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGATGTTGAAAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGATAT
60523288 GAGAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATG
60523320 CTAATATGAG
Statistics
Matches: 154, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 153 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGATAT
Found at i:60534177 original size:51 final size:48
Alignment explanation
Indices: 60534095--60534263 Score: 169
Period size: 48 Copynumber: 3.5 Consensus size: 48
60534085 CCAATGTATA
** * * * *
60534095 TGGGACATGGCATCGGCATTAATATGAGAGCCAGTGCAAGACCATGTC
1 TGGGACATGGCATAAGCTTTGATATGTGAGCCAGTGTAAGACCATGTC
* * * *
60534143 TGTCTGGAGATGGCAT-TGGTGTTGATATGTGAGCCAATGTAAGACCATGTC
1 TG---GGACATGGCATAAGCT-TTGATATGTGAGCCAGTGTAAGACCATGTC
* *
60534194 TGGGACATGGCATAAGCTTTGATATGTGTGCTAGTGTAAGACCATGTC
1 TGGGACATGGCATAAGCTTTGATATGTGAGCCAGTGTAAGACCATGTC
* *
60534242 TGGGACATGGCATCAGCATTGA
1 TGGGACATGGCATAAGCTTTGA
60534264 CATGAGACTT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
48 59 0.59
49 2 0.02
50 1 0.01
51 38 0.38
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGGGACATGGCATAAGCTTTGATATGTGAGCCAGTGTAAGACCATGTC
Found at i:60534282 original size:48 final size:48
Alignment explanation
Indices: 60534182--60534294 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 48
60534172 TGAGCCAATG
* * * * *
60534182 TAAGACCATGTCTGGGACATGGCATAAGCTTTGATATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATAAGCATTGACATGAGTACTAGTA
* *
60534230 TAAGACCATGTCTGGGACATGGCATCAGCATTGACATGAG-ACTTCGTA
1 TAAGACCATGTCTGGGACATGGCATAAGCATTGACATGAGTAC-TAGTA
*
60534278 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
60534295 TAAGATATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.02
48 55 0.98
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATAAGCATTGACATGAGTACTAGTA
Found at i:60542601 original size:28 final size:28
Alignment explanation
Indices: 60542540--60542637 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
60542530 TCACAAATTG
** * *
60542540 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
60542569 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
60542597 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
60542625 GCACTAAGTGTGC
1 GCACTAAGTGTGC
60542638 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:60550269 original size:28 final size:28
Alignment explanation
Indices: 60550208--60550305 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
60550198 TCACAAATTG
** * *
60550208 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
60550237 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
60550265 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
60550293 GCACTAAGTGTGC
1 GCACTAAGTGTGC
60550306 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:60553972 original size:29 final size:29
Alignment explanation
Indices: 60553938--60554098 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
60553928 TACTCGATTT
** * *
60553938 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
60553967 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
60553996 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
60554025 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
60554054 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
60554083 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
60554099 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:60561289 original size:40 final size:40
Alignment explanation
Indices: 60561244--60561411 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
60561234 CGGAATACAA
*
60561244 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
60561284 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* ** *
60561324 CCGGATATAACAACTTGCACGAATGCCTTCGGCTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
60561364 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
60561404 CCGGATAT
1 CCGGATAT
60561412 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:60561384 original size:80 final size:80
Alignment explanation
Indices: 60561244--60561411 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
60561234 CGGAATACAA
* * * *
60561244 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGCTATTAGCCCGGATATAACGACTAGCACAAATG
*
60561309 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
60561324 CCGGATATAACAACTTGCACGAATGCCTTCGGCTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGCTATTAGCCCGGATATAACG--ACTAGCACAAA
*
60561387 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
60561404 CCGGATAT
1 CCGGATAT
60561412 CATTCAATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 74 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGCTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:60564943 original size:48 final size:48
Alignment explanation
Indices: 60564886--60565309 Score: 569
Period size: 48 Copynumber: 8.8 Consensus size: 48
60564876 ACCCTGGTTA
* *
60564886 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * *
60564934 ATAAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGTGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * *
60564982 ATGAGAGCTAGTGTAAGACCATGTTTTGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
**
60565030 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * *
60565078 ATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCGACATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
60565126 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * *
60565174 ATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATTGTCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * * * ** * *
60565222 ATGTGAGGCGGTGTATGACCATGCCTGAAACATGGCATGGGCATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * * *
60565270 ATGTGTGCTAGTGTAAGACCATGTCTGAGACATAGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
60565310 ACACTGACAT
Statistics
Matches: 331, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 331 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
Found at i:60568127 original size:33 final size:33
Alignment explanation
Indices: 60568085--60568150 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
60568075 TTCGAGAGTA
60568085 AGAGAAACTGACTCTGGGTTGATTAATTGAAAT
1 AGAGAAACTGACTCTGGGTTGATTAATTGAAAT
60568118 AGAGAAACTGACTCTGGGTTGATTAATTGAAAT
1 AGAGAAACTGACTCTGGGTTGATTAATTGAAAT
60568151 TTCTTTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.30
Consensus pattern (33 bp):
AGAGAAACTGACTCTGGGTTGATTAATTGAAAT
Found at i:60571344 original size:25 final size:23
Alignment explanation
Indices: 60571316--60571374 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 23
60571306 CTAGAATCAG
60571316 AATCAGAATCAGAATTAGTTGAC
1 AATCAGAATCAGAATTAGTTGAC
60571339 -A--A-AATCAGAATTAGTTGAC
1 AATCAGAATCAGAATTAGTTGAC
60571358 AAAATCAGAATCAGAAT
1 --AATCAGAATCAGAAT
60571375 CAGTATCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
19 17 0.57
20 1 0.03
22 2 0.07
24 1 0.03
25 9 0.30
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (23 bp):
AATCAGAATCAGAATTAGTTGAC
Found at i:60571346 original size:19 final size:19
Alignment explanation
Indices: 60571322--60571368 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
60571312 TCAGAATCAG
60571322 AATCAGAATTAGTTGACAA
1 AATCAGAATTAGTTGACAA
60571341 AATCAGAATTAGTTGACAA
1 AATCAGAATTAGTTGACAA
60571360 AATCAGAAT
1 AATCAGAAT
60571369 CAGAATCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (19 bp):
AATCAGAATTAGTTGACAA
Found at i:60571371 original size:6 final size:6
Alignment explanation
Indices: 60571360--60571437 Score: 61
Period size: 6 Copynumber: 12.5 Consensus size: 6
60571350 TAGTTGACAA
* *
60571360 AATCAG AATCAG AATCAG TATCAGG TAA-CAG AATCAA AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCA-G -AATCAG AATCAG AATCAG AATCAG
* *
60571409 TATCAGG TAA-CAG AATCAAA AATCAG AAT
1 AATCA-G -AATCAG AATC-AG AATCAG AAT
60571438 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.07
6 40 0.70
7 11 0.19
8 2 0.04
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:60571376 original size:31 final size:31
Alignment explanation
Indices: 60571358--60571437 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
60571348 ATTAGTTGAC
* *
60571358 AAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AAAATCAAAATCAGAATCAGAATCAGGTAAC
* *
60571389 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AAAATCAAAATCAGAATCAGAATCAGGTAAC
*
60571420 AGAATCAAAAATCAGAAT
1 AAAATC-AAAATCAGAAT
60571438 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 35 0.76
32 11 0.24
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
AAAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:60571393 original size:19 final size:19
Alignment explanation
Indices: 60571369--60571426 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
60571359 AAATCAGAAT
60571369 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
60571388 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
60571400 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
60571419 CAGAATCA
1 CAGAATCA
60571427 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:60571616 original size:27 final size:26
Alignment explanation
Indices: 60571574--60571675 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
60571564 GCTCAGTTAT
* *
60571574 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
60571601 CAGATATTGTGGCAGAGCCTCCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
60571627 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
60571655 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
60571676 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:60571862 original size:22 final size:22
Alignment explanation
Indices: 60571834--60571898 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
60571824 GCAAATACGT
* *
60571834 TTGGCACACAGCTATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
60571856 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
60571878 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
60571899 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:60572949 original size:27 final size:27
Alignment explanation
Indices: 60572343--60572941 Score: 846
Period size: 27 Copynumber: 22.3 Consensus size: 27
60572333 AACCCCACAA
* *
60572343 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572370 GGTATTTTGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572397 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
60572424 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572451 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572478 GGTATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572505 GGTATTTCGGTAATTCTACCCTAC-GG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572531 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572558 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572585 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572612 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
60572639 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572666 GGTA-TTCGGTAATTCTACGCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572692 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572719 GGTATTTCGGTAATTCTACCGTACTGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
60572746 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
60572773 GGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
60572800 GGTATTCCGGTAATTGTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
60572827 GGTATTCCAGTAATTCTACCCTATAGA
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
60572854 GGTATTTCGGTAATTTTA-CAAACTAGG
1 GGTATTTCGGTAATTCTACCCTAC-AGG
* * ***
60572881 GGTATTTTGGTAATTTTA-TAAACTAGG
1 GGTATTTCGGTAATTCTACCCTAC-AGG
* *
60572908 GGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
60572935 GGTATTT
1 GGTATTT
60572942 TAGAAATTTC
Statistics
Matches: 517, Mismatches: 51, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
26 50 0.10
27 465 0.90
28 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:60572988 original size:27 final size:27
Alignment explanation
Indices: 60572954--60573151 Score: 154
Period size: 27 Copynumber: 7.3 Consensus size: 27
60572944 GAAATTTCAC
60572954 AATCGAGGGTAAAACTATAATTTTGTA
1 AATCGAGGGTAAAACTATAATTTTGTA
*
60572981 AA-CAGAGGGTAAAA-TGGTAATTTTGTA
1 AATC-GAGGGTAAAACT-ATAATTTTGTA
* *
60573008 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACTATAATTTTGTA
* * * *
60573035 AATCGAGGGTAAAA-TGGTAGTTCTATA
1 AATCGAGGGTAAAACT-ATAATTTTGTA
*
60573062 AATCGAGGGTAAAA-TGGTAATTTTGTA
1 AATCGAGGGTAAAACT-ATAATTTTGTA
* * ** * *
60573089 AATCAAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACTATAATTTTGTA
* * **
60573116 AATCAAGGGTAAAA-TGGTAATTTTACA
1 AATCGAGGGTAAAACT-ATAATTTTGTA
60573143 AATCGAGGG
1 AATCGAGGG
60573152 CATTTCAGTA
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.01
27 140 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACTATAATTTTGTA
Found at i:60573070 original size:81 final size:81
Alignment explanation
Indices: 60572985--60573151 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 81
60572975 TTTGTAAACA
* * *
60572985 GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
1 GAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
* *
60573050 GGTAGTTCTATAAATC
66 GGTAATTCTACAAATC
* *
60573066 GAGGGTAAAATGGTAATTTTGTAAATCAAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAAT
1 GAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
*
60573131 GGTAATTTTACAAATC
66 GGTAATTCTACAAATC
60573147 GAGGG
1 GAGGG
60573152 CATTTCAGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
GGTAATTCTACAAATC
Found at i:60573146 original size:54 final size:54
Alignment explanation
Indices: 60572954--60573151 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
60572944 GAAATTTCAC
* * *
60572954 AATCGAGGGTAAAACT-ATAATTTTGTAAA-CAGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAA-TGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
* * * *
60573008 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAGTTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
60573062 AATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* **
60573116 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGG
60573152 CATTTCAGTA
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 125 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:60573162 original size:27 final size:27
Alignment explanation
Indices: 60573131--60573462 Score: 221
Period size: 27 Copynumber: 12.3 Consensus size: 27
60573121 AGGGTAAAAT
*
60573131 GGTAATTTTACAAATCGAGGGCATTTC
1 GGTAATTTTACAAATCGAGGGTATTTC
* ** * * *
60573158 AGTAATTTTGTAAAGCAATGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTC
** **
60573185 TATAATTTTTGGAAAGTCGAGGGTATTTC
1 GGTAA-TTTTACAAA-TCGAGGGTATTTC
* ** *
60573214 TGTAATTTTGTAAATC-AGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTC
* *
60573241 GATAATTTTACAAATTGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTC
* * *
60573268 GGTAATTTCACAAA-CCAGTGGTATTTT
1 GGTAATTTTACAAATCGAG-GGTATTTC
* * *
60573295 GATAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTC
* *
60573322 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTC
* * *
60573349 GGTAATTTTATAAA-CAAAGGGTATTTT
1 GGTAATTTTACAAATC-GAGGGTATTTC
* *
60573376 AGTAATTTTAC-AATCGACGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTC
* *
60573402 GGTAATTTTATAAATCGGGGGTACTTT-
1 GGTAATTTTACAAATCGAGGGTA-TTTC
* *
60573429 GGTAATTTTACAACTAG-GGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTC
*
60573455 AGTAATTT
1 GGTAATTT
60573463 GGTAAATTAA
Statistics
Matches: 249, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 34 0.14
27 176 0.71
28 22 0.09
29 14 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTC
Found at i:60573451 original size:53 final size:54
Alignment explanation
Indices: 60573204--60573462 Score: 247
Period size: 54 Copynumber: 4.8 Consensus size: 54
60573194 TGGAAAGTCG
** * * **
60573204 AGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTT-TGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCA
* * * * *
60573258 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCA
* *
60573312 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAA-CAA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATC-A
* * * * * * *
60573366 AGGGTATTTTAGTAATTTTACAATCGA-CGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCA
* * * **
60573419 GGGGTACTTTGGTAATTTTAC-AACTAGGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
60573463 GGTAAATTAA
Statistics
Matches: 172, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
52 3 0.02
53 55 0.32
54 114 0.66
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCA
Found at i:60575435 original size:6 final size:6
Alignment explanation
Indices: 60575417--60575513 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
60575407 AAGAAACATT
* *
60575417 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
60575466 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
60575514 GTAAAAAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:60575462 original size:31 final size:31
Alignment explanation
Indices: 60575426--60575536 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
60575416 TATCAGAACT
* *
60575426 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
60575457 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
60575488 AGAATCAAAATCAGAATCAGTATCAGGTAAA
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
60575519 AAAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
60575537 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:60575721 original size:27 final size:26
Alignment explanation
Indices: 60575673--60575774 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
60575663 GCTCAGTTAT
* * *
60575673 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
60575700 CAGATATTGTAGCAAAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
*
60575726 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
60575754 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
60575775 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:60575757 original size:54 final size:53
Alignment explanation
Indices: 60575673--60575774 Score: 141
Period size: 54 Copynumber: 1.9 Consensus size: 53
60575663 GCTCAGTTAT
* * *
60575673 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTAGCAAAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
* * *
60575726 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCAC
60575775 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 36 0.86
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
Found at i:60575943 original size:22 final size:21
Alignment explanation
Indices: 60575915--60575979 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
60575905 GCAAATACGT
60575915 TTGGCACATAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
60575937 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
60575959 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
60575980 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:60576974 original size:27 final size:27
Alignment explanation
Indices: 60576404--60576966 Score: 710
Period size: 27 Copynumber: 21.0 Consensus size: 27
60576394 GGTGCAAAAT
* * * *
60576404 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60576430 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
60576457 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60576484 GATAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60576511 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60576538 GGTAATGT-TACCCTACAGGGGTATTTC
1 GGTAAT-TCTACCCTACAGGGGTATTTC
*
60576565 GGTAATTATACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60576591 GGTAATTCTACCCTATAGAGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576618 GATAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60576644 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576671 GGTAATTCTACCCTACA-GGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60576697 GATAATTCTACCCTACAAGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60576724 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576751 GGTAATTCTACCCTACAGAGGGGTATTGC
1 GGTAATTCTACCCTAC--AGGGGTATTTC
* * *
60576780 GATAATTCTACCCTATA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576806 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60576833 TGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576860 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60576886 TGGTAATTCTACCCTATAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
60576914 AGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
60576941 GGTAATTCTATCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
60576967 AAGAAATTTC
Statistics
Matches: 470, Mismatches: 54, Indels: 25
0.86 0.10 0.05
Matches are distributed among these distances:
26 115 0.24
27 324 0.69
28 7 0.01
29 24 0.05
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:60576975 original size:54 final size:54
Alignment explanation
Indices: 60576876--60576980 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
60576866 TCTACCCTAC
* * * * *
60576876 AGGGGTATTCTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTCTGGTAATTCTACCCTACAAGGGTATTTAAGAAATTTCACAAACT
* *
60576930 AGGGGTATTTTGGTAATTCTATCCTACAAGGGTATTTAAGAAATTTCACAA
1 AGGGGTATTCTGGTAATTCTACCCTACAAGGGTATTTAAGAAATTTCACAA
60576981 TCAAGGGTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (54 bp):
AGGGGTATTCTGGTAATTCTACCCTACAAGGGTATTTAAGAAATTTCACAAACT
Found at i:60577015 original size:27 final size:26
Alignment explanation
Indices: 60576983--60577100 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 26
60576973 TTTCACAATC
*
60576983 AAGGGTAAAACGGTCATTTTGTAAACT
1 AAGGGTAAAACGGTAATTTTGTAAA-T
*
60577010 AAGGGTAAAATGGTAATTTTGTAAAT
1 AAGGGTAAAACGGTAATTTTGTAAAT
* * *
60577036 AGAAGGTAAAACGGTAATTCTATAAAT
1 A-AGGGTAAAACGGTAATTTTGTAAAT
* * * *
60577063 CGAGGGTAAAATGGTAATTCTATAAAT
1 -AAGGGTAAAACGGTAATTTTGTAAAT
*
60577090 CGAGGGTAAAA
1 -AAGGGTAAAA
60577101 TGGAATTCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.03
27 78 0.98
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (26 bp):
AAGGGTAAAACGGTAATTTTGTAAAT
Found at i:60577115 original size:26 final size:27
Alignment explanation
Indices: 60577011--60577121 Score: 161
Period size: 27 Copynumber: 4.1 Consensus size: 27
60577001 TTGTAAACTA
* * *
60577011 AGGGTAAAATGGTAATTTTGTAAATAG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
60577038 AAGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
60577065 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
60577092 AGGGTAAAATGG-AATTCTACAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
60577118 AGGG
1 AGGG
60577122 CATTTCAGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
26 17 0.22
27 59 0.78
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTATAAATCG
Done.