Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 139 of 332
Found at i:45495476 original size:42 final size:42
Alignment explanation
Indices: 45495359--45495524 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
45495349 GGTACTGTAC
* * *
45495359 CAATGCCATATCCTAGATATGGTCTTACATGTAATCT-AGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCA-TAT
** * * * *
45495401 TGATGCCAATAGCCCAGCTTTGGTCTTAAACGAAATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * *
45495444 CAATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATAC
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * *
45495486 CGATGCCATATCCCAGATACGGTCTTACACGTAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
45495525 GTAACCCTAA
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 68 0.68
43 31 0.31
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:45502799 original size:43 final size:42
Alignment explanation
Indices: 45502712--45502823 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
45502702 TGAGTTTACG
* * **
45502712 TGTAAGACCATATTCGGGATATGGCATCGGTATGAGATTTCA
1 TGTAAGACCATACTCGGGATATGGCATCGATATGAGATCCCA
* *
45502754 TGTAAGACCATAGCT-GGGCTATTGGCATCGATATGGGATCCCA
1 TGTAAGACCATA-CTCGGGATA-TGGCATCGATATGAGATCCCA
45502797 TGTAAGACCATA-TCCGGGATATGGCAT
1 TGTAAGACCATACT-CGGGATATGGCAT
45502824 TGGTATTGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 23 0.39
43 35 0.59
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATACTCGGGATATGGCATCGATATGAGATCCCA
Found at i:45504904 original size:42 final size:43
Alignment explanation
Indices: 45504806--45504957 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 43
45504796 TCGTACAACA
* *
45504806 CCAATGTCCCAGACATGGTCTTACATGTAATCACATATTGATG
1 CCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCGATG
* * **
45504849 CCACTGTCCCAGACAGGGTCTTATATG-AA-CTTATATACGATG
1 CCAATGTCCCAGACAGGGTCTTACATGTAATCACATAT-CGATG
* *
45504891 CCAATGTCCCAGACATGGTCTTACATGTAAATCACAAATCGATG
1 CCAATGTCCCAGACAGGGTCTTACATGT-AATCACATATCGATG
*
45504935 CCAACGTCCCAGAC-GTGGTCTTA
1 CCAATGTCCCAGACAG-GGTCTTA
45504958 TACAAAATCA
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 5 0.06
42 30 0.33
43 24 0.27
44 27 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
CCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCGATG
Found at i:45506325 original size:22 final size:22
Alignment explanation
Indices: 45506300--45506344 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45506290 CCCACAAGGT
45506300 ATGGATTTTGTAAAAATGAATA
1 ATGGATTTTGTAAAAATGAATA
*
45506322 ATGGATTTTGTAAGAATGAATA
1 ATGGATTTTGTAAAAATGAATA
45506344 A
1 A
45506345 GCCCTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
ATGGATTTTGTAAAAATGAATA
Found at i:45521308 original size:16 final size:16
Alignment explanation
Indices: 45521282--45521324 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
45521272 GTAGATCGAC
*
45521282 AAAAGCCGAAATGCCG
1 AAAAGCTGAAATGCCG
*
45521298 AAAAGTTGAAATGCCG
1 AAAAGCTGAAATGCCG
45521314 AAAAGCTGAAA
1 AAAAGCTGAAA
45521325 GTTTGGCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:45521577 original size:29 final size:29
Alignment explanation
Indices: 45521535--45521627 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
45521525 GTGAGCATGA
*
45521535 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
45521563 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *** * *
45521592 ATATGAATACGAATTAGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
45521621 ATATAAA
1 ATATAAA
45521628 TGAGATTGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 4 0.07
29 52 0.93
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:45530342 original size:24 final size:24
Alignment explanation
Indices: 45530314--45530389 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
45530304 CTGTATATAT
45530314 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
45530338 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
45530361 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
45530385 ATGTG
1 ATGTG
45530390 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:45530476 original size:47 final size:47
Alignment explanation
Indices: 45530240--45530468 Score: 323
Period size: 47 Copynumber: 4.8 Consensus size: 47
45530230 TTAGGATTTT
** * *
45530240 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
45530287 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATA--TGTGATAAGGCCGAATGGCCA
** *
45530338 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
45530385 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
45530432 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGC
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGC
45530469 TAAATGGCTA
Statistics
Matches: 164, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 117 0.71
49 9 0.05
51 38 0.23
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:45530476 original size:94 final size:96
Alignment explanation
Indices: 45530240--45530468 Score: 327
Period size: 98 Copynumber: 2.4 Consensus size: 96
45530230 TTAGGATTTT
** * *
45530240 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
45530305 TGTATATATATGTGTGATAAGGCCGAATGGCCA
66 TG-ACATATA-GTGAGATAAGGCCGAATGGCCA
** * *
45530338 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
45530403 TG-CATATA-TGAGATAAGGCCGAATGGCCA
66 TGACATATAGTGAGATAAGGCCGAATGGCCA
*
45530432 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGC
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGC
45530469 TAAATGGCTA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 53 0.45
96 5 0.04
98 59 0.50
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (96 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGACATATAGTGAGATAAGGCCGAATGGCCA
Found at i:45530520 original size:46 final size:46
Alignment explanation
Indices: 45530455--45530545 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
45530445 GAACATGTAT
* * *
45530455 ATATGTGGTAAGGCTAAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
45530501 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
45530546 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.29
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:45544289 original size:25 final size:25
Alignment explanation
Indices: 45544261--45544350 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
45544251 TATTGTTAGG
45544261 AAAGCCTTTGTGGCTAATCTTATGA
1 AAAGCCTTTGTGGCTAATCTTATGA
* * * *
45544286 AAAGTCTTTATGGC-ATATTTTCA-GG
1 AAAGCCTTTGTGGCTA-ATCTT-ATGA
** *
45544311 AAAGCCCTTTGTTACTAATCTTGTGA
1 AAAG-CCTTTGTGGCTAATCTTATGA
*
45544337 ACAGCCTTTGTGGC
1 AAAGCCTTTGTGGC
45544351 ATATTATGTG
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
24 1 0.02
25 29 0.63
26 15 0.33
27 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (25 bp):
AAAGCCTTTGTGGCTAATCTTATGA
Found at i:45544351 original size:51 final size:50
Alignment explanation
Indices: 45544258--45544355 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
45544248 GTGTATTGTT
* *
45544258 AGGAAAGCCTTTGTGGCTAATCTTATGAAAAGTCTTTATGGCATATTTTC
1 AGGAAAGCCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCATATTTTC
* * * *
45544308 AGGAAAGCCCTTTGTTACTAATCTTGTGAACAGCCTTTGTGGCATATT
1 AGGAAAG-CCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCATATT
45544356 ATGTGGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 7 0.17
51 34 0.83
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (50 bp):
AGGAAAGCCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCATATTTTC
Found at i:45547873 original size:47 final size:48
Alignment explanation
Indices: 45547779--45547885 Score: 153
Period size: 47 Copynumber: 2.2 Consensus size: 48
45547769 ACCTCTAATT
* * * *
45547779 TGTAGATAAACTGCCACTGATAACATTTTATGGACAAGCCACCACTTA
1 TGTAGATAAATTGACACTGATAACACTTTATGGACAAGACACCACTTA
* *
45547827 TGTAGATAAATTGACACTGA-AACACTTTGTGGACAAGATACCACTTA
1 TGTAGATAAATTGACACTGATAACACTTTATGGACAAGACACCACTTA
45547874 TGTAGATAAATT
1 TGTAGATAAATT
45547886 TCCATATACT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 35 0.66
48 18 0.34
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (48 bp):
TGTAGATAAATTGACACTGATAACACTTTATGGACAAGACACCACTTA
Found at i:45553443 original size:14 final size:14
Alignment explanation
Indices: 45553424--45553451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45553414 CCAACCATGC
45553424 CTTGTGGTAGGATA
1 CTTGTGGTAGGATA
45553438 CTTGTGGTAGGATA
1 CTTGTGGTAGGATA
45553452 TGGTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
CTTGTGGTAGGATA
Found at i:45556615 original size:40 final size:40
Alignment explanation
Indices: 45556521--45556777 Score: 267
Period size: 40 Copynumber: 6.5 Consensus size: 40
45556511 TATTCGAATG
*
45556521 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
45556562 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
45556602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
45556642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
45556682 ATATCCGGGCTAAG-TCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * * *
45556722 ATATCTGGGCTAAGACCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGA-CT
45556761 ATATCC-GGCTAA-ATCCG
1 ATATCCGGGCTAAGATCCG
45556778 GAAGATTACT
Statistics
Matches: 184, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
37 4 0.02
38 7 0.04
39 14 0.08
40 129 0.70
41 29 0.16
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:45556695 original size:80 final size:80
Alignment explanation
Indices: 45556521--45556781 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
45556511 TATTCGAATG
* * * *
45556521 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
45556586 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
45556602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
45556667 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
45556682 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCTGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
45556747 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
45556761 ATATCC-GGCTAAATCCGGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45556782 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 97 0.62
81 32 0.21
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:45556735 original size:120 final size:121
Alignment explanation
Indices: 45556521--45556745 Score: 323
Period size: 120 Copynumber: 1.9 Consensus size: 121
45556511 TATTCGAATG
* * *
45556521 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
45556586 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
45556642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
45556705 CA-TCTGTGCTAG-TGACCATATCTGGGCTAAGACCCGAAGGC
65 CATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
45556746 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
119 5 0.05
120 56 0.60
121 32 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:45564799 original size:40 final size:40
Alignment explanation
Indices: 45564705--45564961 Score: 276
Period size: 40 Copynumber: 6.5 Consensus size: 40
45564695 TATTCGAATG
*
45564705 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
45564746 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
45564786 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
45564826 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
45564866 ATATCCGGGCTAAG-TCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * *
45564906 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGA-CT
45564945 ATATCC-GGCTAA-ATCCG
1 ATATCCGGGCTAAGATCCG
45564962 GAAGATTACT
Statistics
Matches: 186, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
37 4 0.02
38 7 0.04
39 15 0.08
40 130 0.70
41 29 0.16
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:45564879 original size:80 final size:80
Alignment explanation
Indices: 45564705--45564965 Score: 321
Period size: 80 Copynumber: 3.3 Consensus size: 80
45564695 TATTCGAATG
* * * *
45564705 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
45564770 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
45564786 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
45564851 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
45564866 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
45564931 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
45564945 ATATCC-GGCTAAATCCGGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45564966 ATTACTTGAG
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 98 0.62
81 32 0.20
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:45564919 original size:120 final size:121
Alignment explanation
Indices: 45564705--45564929 Score: 332
Period size: 120 Copynumber: 1.9 Consensus size: 121
45564695 TATTCGAATG
* * *
45564705 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
45564770 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
45564826 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
45564889 CA-TCTGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGC
65 CATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
45564930 CTTGTGCAAG
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
119 5 0.05
120 57 0.61
121 32 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:45566654 original size:183 final size:184
Alignment explanation
Indices: 45566334--45566701 Score: 562
Period size: 183 Copynumber: 2.0 Consensus size: 184
45566324 ATATCTAGCT
* * * * * *
45566334 CGATGTCCCCTGTGATCTTAAATATTTTATATATAATAGGGTTCAATGACGTTAGATATGTACAT
1 CGATATCCCCTGCGATATTAAATATGTCATATATAATAGAGTTCAATGACGTTAGATATGTACAT
***
45566399 TTCAAGCTCAAAATTCTTCTTCGGATCCCCACTTTCTGCCTAATATTTGTTTGAAGCTCTTTTAA
66 TTCAAGCTCAAAATTCTTCTTCGGATCCCCACTTTCTGCCTAATATTTGTCCAAAGCTCTTTTAA
45566464 CGTTATGCTC-CGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACGTG
131 CGTTATGCTCTCGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACGTG
*
45566517 CGATATCCCCTGCGATATTAAATATGTCATATATAATAGAGTTCAATGACGTTA-ACTATGTGCA
1 CGATATCCCCTGCGATATTAAATATGTCATATATAATAGAGTTCAATGACGTTAGA-TATGTACA
*
45566581 TTTCAAGCTCAAAATTCTTCTTCGGATCCCCACTTT-TCGCCTAATCTTTGTCCAAAGCTCTTTT
65 TTTCAAGCTCAAAATTCTTCTTCGGATCCCCACTTTCT-GCCTAATATTTGTCCAAAGCTCTTTT
* * * *
45566645 AATGTTATGCTCTGGTTAAAAGCCAAACTTTTAGTTTGGGCTAATACAAAAATGTG
129 AACGTTATGCTCTCGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACGTG
45566701 C
1 C
45566702 CCAATTTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
182 2 0.01
183 124 0.74
184 41 0.25
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (184 bp):
CGATATCCCCTGCGATATTAAATATGTCATATATAATAGAGTTCAATGACGTTAGATATGTACAT
TTCAAGCTCAAAATTCTTCTTCGGATCCCCACTTTCTGCCTAATATTTGTCCAAAGCTCTTTTAA
CGTTATGCTCTCGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACGTG
Found at i:45567902 original size:154 final size:155
Alignment explanation
Indices: 45567591--45568090 Score: 439
Period size: 154 Copynumber: 3.2 Consensus size: 155
45567581 CATTTGAATG
* * * *
45567591 AAAAACGCCGCTATAAT-TTCACCTTTAGCGGCGCTTTTTAAAAAAATGCCGC-AAA-AC-TTAT
1 AAAAACACCGCTAT-ATGTACACCTTTAGCGGCGC-TTTCAAAAAAACGCCGCAAAAGACTTTA-
* * * * * * * * * * * **
45567652 GCTAAACGCCGTCGTTTT-AACTGAG-CTTCAGCGGTTTTAGCGGCATTTTTTGAAAAGCGCCGC
63 ACAAAATGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCA-CTTTTAAAAAAAGCCGC
* *
45567715 TAAAGATCGAGTATTAGCGGTGCCTTTTA
127 TAAAGATCGAGTATTAGCGGTGCTTTTTT
* * * *
45567744 AAAAACACCGCTA-ATGTCAGATCTTTAGCGGCGCTTTACAAAAAAACGTCGCAAAATA-TTTAA
1 AAAAACACCGCTATATGT-ACACCTTTAGCGGCGCTTT-CAAAAAAACGCCGCAAAAGACTTTAA
* *
45567807 CACAATGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCAC-TTTAAAAAACA-CTGCT
64 CAAAATGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAA-AGCCGCT
*
45567870 AAAGATCAAGTATTAGCGGTGCTTTTTT
128 AAAGATCGAGTATTAGCGGTGCTTTTTT
* ** * **
45567898 AAAAACACCGCTATATGTACACCTTTAGCAGCG-TGTTTTAGAAAACGCCGCAAAAGACTTTTGC
1 AAAAACACCGCTATATGTACACCTTTAGCGGCGCT-TTCAAAAAAACGCCGCAAAAGACTTTAAC
** * * **
45567962 AAAATGTTGTCGTTTTGTATTGAGCTTTTAGTGGCTTTAGCGGTGCTTTTAAAAAAATGCCGCTA
65 AAAATGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAAA-GCCGCTA
* *
45568027 AAGATCGAGTATTAGCAGCG-TTTTTT
129 AAGATCGAGTATTAGCGGTGCTTTTTT
* * *
45568053 AAGAAACGCCACTATAGGTACACCTTTAGCGGCGCTTT
1 AA-AAACACCGCTATATGTACACCTTTAGCGGCGCTTT
45568091 TTTAAAAATG
Statistics
Matches: 280, Mismatches: 50, Indels: 31
0.78 0.14 0.09
Matches are distributed among these distances:
151 2 0.01
152 4 0.01
153 52 0.19
154 123 0.44
155 30 0.11
156 68 0.24
157 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (155 bp):
AAAAACACCGCTATATGTACACCTTTAGCGGCGCTTTCAAAAAAACGCCGCAAAAGACTTTAACA
AAATGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAAAGCCGCTAAA
GATCGAGTATTAGCGGTGCTTTTTT
Found at i:45568092 original size:40 final size:39
Alignment explanation
Indices: 45568038--45568136 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
45568028 AGATCGAGTA
*
45568038 TTAGCAGCGTTTTTTAAGAAACGCCACTATAGGTACACCT
1 TTAGCGGCG-TTTTTAAGAAACGCCACTATAGGTACACCT
* * *
45568078 TTAGCGGCGCTTTTTTAA-AAATGCCGCTATATGTACACCT
1 TTAGCGGCG--TTTTTAAGAAACGCCACTATAGGTACACCT
*
45568118 TTAGCGACGTTTTT-AGAAA
1 TTAGCGGCGTTTTTAAGAAA
45568137 GACGCCGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 8 0.15
40 35 0.67
41 8 0.15
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAGAAACGCCACTATAGGTACACCT
Found at i:45568104 original size:156 final size:154
Alignment explanation
Indices: 45567820--45568104 Score: 387
Period size: 156 Copynumber: 1.8 Consensus size: 154
45567810 AATGCCGTCA
*
45567820 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTAAAAAACACTGCTAAAGATCAAGTATTA
1 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTAAAAAACACCGCTAAAGATCAAGTATTA
* * * *
45567885 GCGGTGCTTTTTTAAAAACACCGCTATATGTACACCTTTAGCAGCGTGTTTTAGAAAACGCCGCA
66 GCAGCGCTTTTTTAAAAACACCACTATAGGTACACCTTTAGCAGCGTGTTTTAGAAAACGCCGCA
45567950 AAAGACTTTTGCAAAATGTTGTCG
131 AAAGACTTTTGCAAAATGTTGTCG
* ** *
45567974 TTTTGTATTGAGCTTTTAGTGGCTTTAGCGGTGCTTTTAAAAAA-ATGCCGCTAAAGATCGAGTA
1 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCAC-TTTAAAAAACA--CCGCTAAAGATCAAGTA
* * * *
45568038 TTAGCAGCG-TTTTTTAAGAAACGCCACTATAGGTACACCTTTAGCGGCGCTTTTTTA-AAAATG
63 TTAGCAGCGCTTTTTTAA-AAACACCACTATAGGTACACCTTTAGCAGCG-TGTTTTAGAAAACG
45568101 CCGC
126 CCGC
45568105 TATATGTACA
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
154 32 0.28
155 17 0.15
156 58 0.51
157 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (154 bp):
TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTAAAAAACACCGCTAAAGATCAAGTATTA
GCAGCGCTTTTTTAAAAACACCACTATAGGTACACCTTTAGCAGCGTGTTTTAGAAAACGCCGCA
AAAGACTTTTGCAAAATGTTGTCG
Found at i:45568451 original size:15 final size:15
Alignment explanation
Indices: 45568431--45568461 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45568421 ACTATTTTAA
*
45568431 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
45568446 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
45568461 G
1 G
45568462 TTAAAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:45568451 original size:22 final size:22
Alignment explanation
Indices: 45568380--45568461 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
45568370 TTATAGTTTA
* * *
45568380 GGGTTTACGGTATATGG-TTAA
1 GGGTTTAAGGTTTATGGATTAT
*
45568401 GGGTTTAATGTTTATGAGATACTAT
1 GGGTTTAAGGTTTATG-GAT--TAT
45568426 ---TTTAAGGTTTATGGATTAT
1 GGGTTTAAGGTTTATGGATTAT
* *
45568445 GGGTTTAGGGATTATGG
1 GGGTTTAAGGTTTATGG
45568462 TTAAAGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
19 3 0.06
21 16 0.34
22 25 0.53
23 1 0.02
25 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (22 bp):
GGGTTTAAGGTTTATGGATTAT
Found at i:45568512 original size:21 final size:22
Alignment explanation
Indices: 45568488--45568540 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
45568478 CGGTTGGGGT
45568488 TTAAGGTTTAGGTGTT-ATGGG
1 TTAAGGTTTAGGTGTTCATGGG
* *
45568509 TTAAGGGTTAGGTGTTCATGGT
1 TTAAGGTTTAGGTGTTCATGGG
*
45568531 TTAGGGTTTA
1 TTAAGGTTTA
45568541 TGTTTTAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (22 bp):
TTAAGGTTTAGGTGTTCATGGG
Found at i:45568547 original size:14 final size:14
Alignment explanation
Indices: 45568516--45568587 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
45568506 GGGTTAAGGG
* *
45568516 TTAGGTGTTCATGGT
1 TTAGG-GTTTATGAT
*
45568531 TTAGGGTTTATGTT
1 TTAGGGTTTATGAT
*
45568545 TTAGGATTTATGAT
1 TTAGGGTTTATGAT
*
45568559 TTAGGGTTTAGGAGT
1 TTAGGGTTTATGA-T
*
45568574 TTAAGGTTTA-GAT
1 TTAGGGTTTATGAT
45568587 T
1 T
45568588 AATTAGTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
13 2 0.04
14 32 0.65
15 15 0.31
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:45568554 original size:21 final size:22
Alignment explanation
Indices: 45568529--45568584 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
45568519 GGTGTTCATG
* * *
45568529 GTTTAGGGTTTATGTTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
* *
45568551 -TTTATGATTTAGGGTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
45568572 GTTTAAGGTTTAG
1 GTTTAAGGTTTAG
45568585 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGTTTAGGA
Found at i:45568729 original size:14 final size:14
Alignment explanation
Indices: 45568678--45568722 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45568668 TTAATTATCA
*
45568678 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
45568692 TTATGGTTTAGTGT
1 TTATGGTTTAGGGT
*
45568706 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
45568720 TTA
1 TTA
45568723 AGCTTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45569234 original size:21 final size:21
Alignment explanation
Indices: 45569209--45569255 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45569199 TTAGCGTGTA
*
45569209 GGTTTATTG-TCTATGATTTAG
1 GGTTTA-TGATCTAGGATTTAG
*
45569230 GGTTTATGATCTAGGATTTGG
1 GGTTTATGATCTAGGATTTAG
45569251 GGTTT
1 GGTTT
45569256 GGTGTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.17, C:0.04, G:0.30, T:0.49
Consensus pattern (21 bp):
GGTTTATGATCTAGGATTTAG
Found at i:45569753 original size:41 final size:41
Alignment explanation
Indices: 45569668--45569754 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
45569658 GTTTTTGGGT
* * * * **
45569668 AAAACGCCGTAAAAAGTTGAGCTATAATAGCGTTTTTAGTA
1 AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
* *
45569709 AAAATGCCGTAAAAAATTAAGCTATAGTGGCGTTTTCACAA
1 AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
45569750 AAAAT
1 AAAAT
45569755 CCGAGAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (41 bp):
AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
Found at i:45570088 original size:3 final size:3
Alignment explanation
Indices: 45570032--45570068 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45570022 AATGGAAGTT
45570032 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
45570069 GGGGAGGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45576399 original size:7 final size:7
Alignment explanation
Indices: 45576389--45576424 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
45576379 TTTTATATAC
45576389 TAATAAA
1 TAATAAA
45576396 TAATAAA
1 TAATAAA
45576403 TAATGAAA
1 TAAT-AAA
*
45576411 TAATATA
1 TAATAAA
45576418 TAATAAA
1 TAATAAA
45576425 AGGAAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:45576413 original size:15 final size:14
Alignment explanation
Indices: 45576389--45576424 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
45576379 TTTTATATAC
45576389 TAATAAATAATAAA
1 TAATAAATAATAAA
*
45576403 TAATGAAATAATATA
1 TAAT-AAATAATAAA
45576418 TAATAAA
1 TAATAAA
45576425 AGGAAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:45576461 original size:10 final size:10
Alignment explanation
Indices: 45576442--45576530 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
45576432 TATTATAGGG
*
45576442 AATAATATAT
1 AATAAAATAT
45576452 AATAAAATAT
1 AATAAAATAT
*
45576462 GAT---ATAT
1 AATAAAATAT
45576469 AATAAAATATAT
1 AAT-AAA-ATAT
45576481 AAATAAAATAT
1 -AATAAAATAT
*
45576492 AATGAAATAT
1 AATAAAATAT
*
45576502 AA-ATAATAT
1 AATAAAATAT
*
45576511 GATAAAATAT
1 AATAAAATAT
*
45576521 CATATAAATA
1 AATA-AAATA
45576531 AAAATAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 31 0.50
11 9 0.15
12 7 0.11
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:45576466 original size:17 final size:16
Alignment explanation
Indices: 45576446--45576514 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
45576436 ATAGGGAATA
45576446 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
45576463 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
45576479 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
45576496 AAATATAAATAATATG
1 ATATATAAAAAATATG
45576512 ATA
1 ATA
45576515 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:45576486 original size:40 final size:42
Alignment explanation
Indices: 45576442--45576539 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 42
45576432 TATTATAGGG
* *
45576442 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
45576482 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
45576527 AATAAAA-ATAATA
1 AATAAAATATAATA
45576540 TATACTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 18 0.38
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.15
45 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:45576518 original size:19 final size:20
Alignment explanation
Indices: 45576442--45576530 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
45576432 TATTATAGGG
45576442 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
45576462 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
45576482 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
45576503 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
*
45576523 TATAAATA
1 AATAAATA
45576531 AAAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.13
18 3 0.05
19 17 0.31
20 7 0.13
21 12 0.22
22 2 0.04
23 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:45576536 original size:30 final size:29
Alignment explanation
Indices: 45576448--45576541 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
45576438 AGGGAATAAT
45576448 ATATAATAAAATATGATATATAAT-AAAAT-
1 ATATAATAAAATAT-ATATA-AATAAAAATA
*
45576477 ATATAAATAAAATATA-ATGAAATATAAATA
1 ATAT-AATAAAATATATAT-AAATAAAAATA
*
45576507 ATATGATAAAATATCATATAAATAAAAATA
1 ATATAATAAAATAT-ATATAAATAAAAATA
45576537 ATATA
1 ATATA
45576542 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAATAAAATATATATAAATAAAAATA
Found at i:45576542 original size:17 final size:15
Alignment explanation
Indices: 45576446--45576543 Score: 82
Period size: 15 Copynumber: 6.5 Consensus size: 15
45576436 ATAGGGAATA
45576446 ATATAT-AATAAAAT
1 ATATATAAATAAAAT
45576460 ATGATATATAAT-AAA-
1 AT-ATATA-AATAAAAT
45576475 ATATATAAATAAAAT
1 ATATATAAATAAAAT
45576490 ATA-ATGAAATATAAAT
1 ATATAT-AAATA-AAAT
*
45576506 A-ATAT-GATAAAAT
1 ATATATAAATAAAAT
45576519 ATCATATAAATAAAAAT
1 AT-ATATAAAT-AAAAT
45576536 AATATATA
1 -ATATATA
45576544 CTATTTTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 23
0.73 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 15 0.22
15 19 0.28
16 12 0.17
17 13 0.19
18 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAAATAAAAT
Found at i:45578421 original size:132 final size:131
Alignment explanation
Indices: 45578114--45578421 Score: 435
Period size: 132 Copynumber: 2.3 Consensus size: 131
45578104 AGCCGAAATG
* * * * *
45578114 TTCGATCTACTCTCTGACAATACAGAGACGCCGAATCCGCTACCCTCGATCTGCTCTCTGACAAT
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTA-TCTCGATCTGCTCTCTGACAAT
45578179 ACAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTA
65 ACAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTA
45578244 TC
130 TC
* *
45578246 TTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATCTACGATCTGCTCTCTGACAAT
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATCT-CGATCTGCTCTCTGACAAT
* * *
45578311 ACAG-GG-ATGCCAAATCTACTATCTTTGATCC-GCT-TCCTGACAATACAGAGATGCCAAATCT
65 ACAGAGGCA--CCAAATCTACCATCTTCGA-CCTGCTAT-CTCACAATACAGAGATGCCAAATCT
45578372 GCTATC
126 GCTATC
*
45578378 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
45578422 GGTGATCTAC
Statistics
Matches: 158, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
130 1 0.01
131 5 0.03
132 150 0.95
133 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (131 bp):
TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATCTCGATCTGCTCTCTGACAATA
CAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTAT
C
Found at i:45578428 original size:88 final size:88
Alignment explanation
Indices: 45578058--45578421 Score: 385
Period size: 88 Copynumber: 4.1 Consensus size: 88
45578048 TCAAGAAAGT
* * * ** * * *
45578058 CAAATCTGCTATCTTCAACCTGCT-TCCT-ATCAATATAGAGACGCCAAGCCGA-AATGTTCGAT
1 CAAATCTGCTATCTTCGATCTGCTCT-CTGA-CAATACAGAGACGCCAAATCTACTATCTTCGAT
*
45578120 CTACTCTCTGACAATACAGAGACGC
64 CTGCTCTCTGACAATACAGAGACGC
* * * * * * * *
45578145 CGAATCCGCTACCCTCGATCTGCTCTCTGACAATACAGAGGCACCAAATCTACCATCTTCGACCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
* * *
45578210 GCTATCTCACAATACAGAGATGC
66 GCTCTCTGACAATACAGAGACGC
* * *
45578233 CAAATCTGCTATCTTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATCTACGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
* *
45578298 GCTCTCTGACAATACAGGGATGC
66 GCTCTCTGACAATACAGAGACGC
* * * * *
45578321 CAAATCTACTATCTTTGATCCGCT-TCCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATC
1 CAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAGACGCCAAATCTACTATCTTCGATC
*
45578385 TGCTCTCTGACAATACAGGGACGC
65 TGCTCTCTGACAATACAGAGACGC
*
45578409 CAAATTTGCTATC
1 CAAATCTGCTATC
45578422 GGTGATCTAC
Statistics
Matches: 229, Mismatches: 44, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
87 37 0.16
88 192 0.84
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (88 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
GCTCTCTGACAATACAGAGACGC
Found at i:45578429 original size:44 final size:44
Alignment explanation
Indices: 45578114--45578421 Score: 368
Period size: 44 Copynumber: 7.0 Consensus size: 44
45578104 AGCCGAAATG
* * * * *
45578114 TTCGATCTACTCTCTGACAATACAGAGACGCCGAATCCGCTACC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * * *
45578158 CTCGATCTGCTCTCTGACAATACAGAGG-CACCAAATCTACCATC
1 TTCGATCTGCTCTCTGACAATACAG-GGACGCCAAATCTGCTATC
* * * * *
45578202 TTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* *
45578246 TTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * *
45578290 TACGATCTGCTCTCTGACAATACAGGGATGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * * *
45578334 TTTGATCCGCT-TCCTGACAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCT-CTGACAATACAGGGACGCCAAATCTGCTATC
*
45578378 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
45578422 GGTGATCTAC
Statistics
Matches: 222, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.01
44 218 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
Found at i:45581973 original size:12 final size:12
Alignment explanation
Indices: 45581956--45581980 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45581946 TGTTCAAGAT
45581956 TTAGCAATCATG
1 TTAGCAATCATG
45581968 TTAGCAATCATG
1 TTAGCAATCATG
45581980 T
1 T
45581981 CATCAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TTAGCAATCATG
Found at i:45586618 original size:18 final size:18
Alignment explanation
Indices: 45586595--45586633 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
45586585 ATGCCAGGTG
*
45586595 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
45586613 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
45586631 TGT
1 TGT
45586634 TTTCATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:45590558 original size:14 final size:13
Alignment explanation
Indices: 45590539--45590587 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
45590529 ATTTAATGTT
*
45590539 TAATTATATTAGGA
1 TAATTAT-TAAGGA
45590553 TAATTATTAAGAGA
1 TAATTATTAAG-GA
45590567 TAATTATTAAGGA
1 TAATTATTAAGGA
45590580 TAATTATT
1 TAATTATT
45590588 TAGATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:45590597 original size:27 final size:26
Alignment explanation
Indices: 45590545--45590605 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
45590535 TGTTTAATTA
**
45590545 TATTAGGATAATTATTAAGAGATAAT
1 TATTAGGATAATTATTAAGATTTAAT
*
45590571 TATTAAGGATAATTATTTAGATTTAAT
1 TATT-AGGATAATTATTAAGATTTAAT
45590598 T-TTAGGAT
1 TATTAGGAT
45590606 TTAATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 6 0.19
27 20 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (26 bp):
TATTAGGATAATTATTAAGATTTAAT
Found at i:45590624 original size:10 final size:10
Alignment explanation
Indices: 45590611--45590653 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
45590601 AGGATTTAAT
45590611 TTTATTTATC
1 TTTATTTATC
*
45590621 TTTAATTATC
1 TTTATTTATC
45590631 TTTATTTAT-
1 TTTATTTATC
45590640 TTGTATTTATC
1 TT-TATTTATC
45590651 TTT
1 TTT
45590654 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:45592875 original size:45 final size:44
Alignment explanation
Indices: 45592811--45592896 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
45592801 CCAAAACATG
45592811 TGTCACACATATCACGAACTCAGACCACAACTCAATGAGTTCCGT
1 TGTCACACATATCACGAACTCAGA-CACAACTCAATGAGTTCCGT
* * *
45592856 TGTCAC-CTATATCATGAACTCAGACAGAACTCGATGAGTTC
1 TGTCACAC-ATATCACGAACTCAGACACAACTCAATGAGTTC
45592897 AGATTACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (44 bp):
TGTCACACATATCACGAACTCAGACACAACTCAATGAGTTCCGT
Found at i:45594942 original size:33 final size:34
Alignment explanation
Indices: 45594904--45595013 Score: 129
Period size: 33 Copynumber: 3.3 Consensus size: 34
45594894 AACTAAACCC
* * *
45594904 TAATTTAATTAATTT-TAACCCTAAACCCTAATT
1 TAATTTAATTTATTTAAAACCATAAACCCTAATT
*
45594937 TAATTT-ATTTATTTAAAACCTTTAAACCCTAATT
1 TAATTTAATTTATTTAAAACC-ATAAACCCTAATT
* *
45594971 T-ACTTAATTTATTTAAAATCATAAACCCTAATT
1 TAATTTAATTTATTTAAAACCATAAACCCTAATT
45595004 TAA-TTAATTT
1 TAATTTAATTT
45595014 CTATAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
32 7 0.10
33 33 0.49
34 27 0.40
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (34 bp):
TAATTTAATTTATTTAAAACCATAAACCCTAATT
Found at i:45595022 original size:33 final size:33
Alignment explanation
Indices: 45594897--45595013 Score: 145
Period size: 34 Copynumber: 3.7 Consensus size: 33
45594887 TTAAAAAAAC
*
45594897 TAAACCCTAATTTAATTAA--T-TTT--AACCC
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
* *
45594925 TAAACCCTAATTTAATTTATTTATTTAAAACCTT
1 TAAACCCTAATTTAATTAATTTATTTAAAACC-A
* *
45594959 TAAACCCTAATTTACTTAATTTATTTAAAATCA
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
45594992 TAAACCCTAATTTAATTAATTT
1 TAAACCCTAATTTAATTAATTT
45595014 CTATAAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
28 18 0.24
30 1 0.01
31 3 0.04
33 25 0.33
34 29 0.38
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:45595113 original size:34 final size:35
Alignment explanation
Indices: 45595055--45595135 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 35
45595045 TTAAAATCCA
*
45595055 CTAAAACCTTAAACCCTAACTTATTTTAACAAAAAC
1 CTAAAACC-TAAACCCTAAATTATTTTAACAAAAAC
** *
45595091 CTAAAACCTAAA-CCTAAATTATTTTAGGAAAACC
1 CTAAAACCTAAACCCTAAATTATTTTAACAAAAAC
45595125 CT-AAACCTAAA
1 CTAAAACCTAAA
45595136 AACCCTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 9 0.22
34 20 0.49
35 4 0.10
36 8 0.20
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.26
Consensus pattern (35 bp):
CTAAAACCTAAACCCTAAATTATTTTAACAAAAAC
Found at i:45598761 original size:154 final size:155
Alignment explanation
Indices: 45598566--45598850 Score: 396
Period size: 156 Copynumber: 1.8 Consensus size: 155
45598556 TATTACGTCA
* *
45598566 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAACA-CTGCTAAAGATCAAGTATT
1 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAAAGCCGCTAAAGATCAAGTATT
* * * *
45598630 AGCGGTGCTTTTTTAA-AAACACCGCTATATGTACACCTTTAGCAGCG-TGTTTTAGAAAACGCC
66 AGCAGCG-TTTTTTAAGAAACACCACTATAGGTACACCTTTAGCAGCGCTGTTTTA-AAAACGCC
45598693 GCAAAAGACTTTTGCAAAATGTTGTCG
129 GCAAAAGACTTTTGCAAAATGTTGTCG
* ** *
45598720 TTTTGTATTGAGCTTTTAGTGGCTTTAGCGGTGCTTTTAAAAAAATGCCGCTAAAGATCGAGTAT
1 TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAAA-GCCGCTAAAGATCAAGTAT
* * * *
45598785 TAGCAGCGTTTTTTAAGAAACGCCACTATAGGTACACCTTTAGCGGCGCTTTTTTAAAAATGCCG
65 TAGCAGCGTTTTTTAAGAAACACCACTATAGGTACACCTTTAGCAGCGCTGTTTTAAAAACGCCG
45598850 C
130 C
45598851 TATATGTACA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
154 41 0.36
155 8 0.07
156 58 0.51
157 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (155 bp):
TTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAAAAGCCGCTAAAGATCAAGTATT
AGCAGCGTTTTTTAAGAAACACCACTATAGGTACACCTTTAGCAGCGCTGTTTTAAAAACGCCGC
AAAAGACTTTTGCAAAATGTTGTCG
Found at i:45598838 original size:40 final size:39
Alignment explanation
Indices: 45598784--45598882 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
45598774 AGATCGAGTA
*
45598784 TTAGCAGCGTTTTTTAAGAAACGCCACTATAGGTACACCT
1 TTAGCGGCG-TTTTTAAGAAACGCCACTATAGGTACACCT
* * *
45598824 TTAGCGGCGCTTTTTTAA-AAATGCCGCTATATGTACACCT
1 TTAGCGGCG--TTTTTAAGAAACGCCACTATAGGTACACCT
*
45598864 TTAGCGACGTTTTT-AGAAA
1 TTAGCGGCGTTTTTAAGAAA
45598883 GACGCCGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 8 0.15
40 35 0.67
41 8 0.15
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAGAAACGCCACTATAGGTACACCT
Found at i:45599197 original size:15 final size:15
Alignment explanation
Indices: 45599177--45599207 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45599167 ACTATTTTAA
*
45599177 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
45599192 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
45599207 G
1 G
45599208 TTAAAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:45599197 original size:22 final size:22
Alignment explanation
Indices: 45599126--45599207 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
45599116 TTATAGTTTA
* * *
45599126 GGGTTTACGGTATATGG-TTAA
1 GGGTTTAAGGTTTATGGATTAT
*
45599147 GGGTTTAATGTTTATGAGATACTAT
1 GGGTTTAAGGTTTATG-GAT--TAT
45599172 ---TTTAAGGTTTATGGATTAT
1 GGGTTTAAGGTTTATGGATTAT
* *
45599191 GGGTTTAGGGATTATGG
1 GGGTTTAAGGTTTATGG
45599208 TTAAAGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
19 3 0.06
21 16 0.34
22 25 0.53
23 1 0.02
25 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (22 bp):
GGGTTTAAGGTTTATGGATTAT
Found at i:45599258 original size:21 final size:22
Alignment explanation
Indices: 45599234--45599286 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
45599224 CGGTTGGGGT
45599234 TTAAGGTTTAGGTGTT-ATGGG
1 TTAAGGTTTAGGTGTTCATGGG
* *
45599255 TTAAGGGTTAGGTGTTCATGGT
1 TTAAGGTTTAGGTGTTCATGGG
*
45599277 TTAGGGTTTA
1 TTAAGGTTTA
45599287 TGTTTTAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (22 bp):
TTAAGGTTTAGGTGTTCATGGG
Found at i:45599293 original size:14 final size:14
Alignment explanation
Indices: 45599262--45599333 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
45599252 GGGTTAAGGG
* *
45599262 TTAGGTGTTCATGGT
1 TTAGG-GTTTATGAT
*
45599277 TTAGGGTTTATGTT
1 TTAGGGTTTATGAT
*
45599291 TTAGGATTTATGAT
1 TTAGGGTTTATGAT
*
45599305 TTAGGGTTTAGGAGT
1 TTAGGGTTTATGA-T
*
45599320 TTAAGGTTTA-GAT
1 TTAGGGTTTATGAT
45599333 T
1 T
45599334 AATTAGTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
13 2 0.04
14 32 0.65
15 15 0.31
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:45599300 original size:21 final size:22
Alignment explanation
Indices: 45599275--45599330 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
45599265 GGTGTTCATG
* * *
45599275 GTTTAGGGTTTATGTTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
* *
45599297 -TTTATGATTTAGGGTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
45599318 GTTTAAGGTTTAG
1 GTTTAAGGTTTAG
45599331 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGTTTAGGA
Found at i:45599475 original size:14 final size:14
Alignment explanation
Indices: 45599424--45599468 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45599414 TTAATTATCA
*
45599424 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
45599438 TTATGGTTTAGTGT
1 TTATGGTTTAGGGT
*
45599452 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
45599466 TTA
1 TTA
45599469 AGCTTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45599981 original size:21 final size:21
Alignment explanation
Indices: 45599956--45600002 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45599946 TTAGCGTGTA
*
45599956 GGTTTATTG-TCTATGATTTAG
1 GGTTTA-TGATCTAGGATTTAG
*
45599977 GGTTTATGATCTAGGATTTGG
1 GGTTTATGATCTAGGATTTAG
45599998 GGTTT
1 GGTTT
45600003 GGTGTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.17, C:0.04, G:0.30, T:0.49
Consensus pattern (21 bp):
GGTTTATGATCTAGGATTTAG
Found at i:45600502 original size:41 final size:41
Alignment explanation
Indices: 45600417--45600503 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
45600407 GTTTTTGGGT
* * * * **
45600417 AAAACGCCGTAAAAAGTTGAGCTATAATAGCGTTTTTAGTA
1 AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
* *
45600458 AAAATGCCGTAAAAAATTAAGCTATAGTGGCGTTTTCACAA
1 AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
45600499 AAAAT
1 AAAAT
45600504 CCGAGAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (41 bp):
AAAATGCCGTAAAAAATTAAGCTATAATAGCGTTTTCACAA
Found at i:45600837 original size:3 final size:3
Alignment explanation
Indices: 45600781--45600817 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45600771 AATGGAAGTT
45600781 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
45600818 GGGGGGAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45607154 original size:7 final size:7
Alignment explanation
Indices: 45607144--45607179 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
45607134 TTTTATATAC
45607144 TAATAAA
1 TAATAAA
45607151 TAATAAA
1 TAATAAA
45607158 TAATGAAA
1 TAAT-AAA
*
45607166 TAATATA
1 TAATAAA
45607173 TAATAAA
1 TAATAAA
45607180 AGGAAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:45607168 original size:15 final size:14
Alignment explanation
Indices: 45607144--45607179 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
45607134 TTTTATATAC
45607144 TAATAAATAATAAA
1 TAATAAATAATAAA
*
45607158 TAATGAAATAATATA
1 TAAT-AAATAATAAA
45607173 TAATAAA
1 TAATAAA
45607180 AGGAAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:45607216 original size:10 final size:10
Alignment explanation
Indices: 45607197--45607285 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
45607187 TATTATAGGG
*
45607197 AATAATATAT
1 AATAAAATAT
45607207 AATAAAATAT
1 AATAAAATAT
*
45607217 GAT---ATAT
1 AATAAAATAT
45607224 AATAAAATATAT
1 AAT-AAA-ATAT
45607236 AAATAAAATAT
1 -AATAAAATAT
*
45607247 AATGAAATAT
1 AATAAAATAT
*
45607257 AA-ATAATAT
1 AATAAAATAT
*
45607266 GATAAAATAT
1 AATAAAATAT
*
45607276 CATATAAATA
1 AATA-AAATA
45607286 AAAATAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 31 0.50
11 9 0.15
12 7 0.11
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:45607221 original size:17 final size:16
Alignment explanation
Indices: 45607201--45607269 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
45607191 ATAGGGAATA
45607201 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
45607218 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
45607234 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
45607251 AAATATAAATAATATG
1 ATATATAAAAAATATG
45607267 ATA
1 ATA
45607270 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:45607241 original size:40 final size:42
Alignment explanation
Indices: 45607197--45607294 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 42
45607187 TATTATAGGG
* *
45607197 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
45607237 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
45607282 AATAAAA-ATAATA
1 AATAAAATATAATA
45607295 TATACTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 18 0.38
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.15
45 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:45607273 original size:19 final size:20
Alignment explanation
Indices: 45607197--45607285 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
45607187 TATTATAGGG
45607197 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
45607217 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
45607237 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
45607258 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
*
45607278 TATAAATA
1 AATAAATA
45607286 AAAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.13
18 3 0.05
19 17 0.31
20 7 0.13
21 12 0.22
22 2 0.04
23 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:45607291 original size:30 final size:29
Alignment explanation
Indices: 45607203--45607296 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
45607193 AGGGAATAAT
45607203 ATATAATAAAATATGATATATAAT-AAAAT-
1 ATATAATAAAATAT-ATATA-AATAAAAATA
*
45607232 ATATAAATAAAATATA-ATGAAATATAAATA
1 ATAT-AATAAAATATATAT-AAATAAAAATA
*
45607262 ATATGATAAAATATCATATAAATAAAAATA
1 ATATAATAAAATAT-ATATAAATAAAAATA
45607292 ATATA
1 ATATA
45607297 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAATAAAATATATATAAATAAAAATA
Found at i:45607297 original size:17 final size:15
Alignment explanation
Indices: 45607201--45607298 Score: 82
Period size: 15 Copynumber: 6.5 Consensus size: 15
45607191 ATAGGGAATA
45607201 ATATAT-AATAAAAT
1 ATATATAAATAAAAT
45607215 ATGATATATAAT-AAA-
1 AT-ATATA-AATAAAAT
45607230 ATATATAAATAAAAT
1 ATATATAAATAAAAT
45607245 ATA-ATGAAATATAAAT
1 ATATAT-AAATA-AAAT
*
45607261 A-ATAT-GATAAAAT
1 ATATATAAATAAAAT
45607274 ATCATATAAATAAAAAT
1 AT-ATATAAAT-AAAAT
45607291 AATATATA
1 -ATATATA
45607299 CTATTTTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 23
0.73 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 15 0.22
15 19 0.28
16 12 0.17
17 13 0.19
18 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAAATAAAAT
Found at i:45609176 original size:132 final size:131
Alignment explanation
Indices: 45608869--45609176 Score: 435
Period size: 132 Copynumber: 2.3 Consensus size: 131
45608859 AGCCGAAATG
* * * * *
45608869 TTCGATCTACTCTCTGACAATACAGAGACGCCGAATCCGCTACCCTCGATCTGCTCTCTGACAAT
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTA-TCTCGATCTGCTCTCTGACAAT
45608934 ACAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTA
65 ACAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTA
45608999 TC
130 TC
* *
45609001 TTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATCTACGATCTGCTCTCTGACAAT
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATCT-CGATCTGCTCTCTGACAAT
* * *
45609066 ACAG-GG-ATGCCAAATCTACTATCTTTGATCC-GCT-TCCTGACAATACAGAGATGCCAAATCT
65 ACAGAGGCA--CCAAATCTACCATCTTCGA-CCTGCTAT-CTCACAATACAGAGATGCCAAATCT
45609127 GCTATC
126 GCTATC
*
45609133 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
45609177 GGTGATCTAC
Statistics
Matches: 158, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
130 1 0.01
131 5 0.03
132 150 0.95
133 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (131 bp):
TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATCTCGATCTGCTCTCTGACAATA
CAGAGGCACCAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTAT
C
Found at i:45609183 original size:88 final size:88
Alignment explanation
Indices: 45608813--45609176 Score: 385
Period size: 88 Copynumber: 4.1 Consensus size: 88
45608803 TCAAGAAAGT
* * * ** * * *
45608813 CAAATCTGCTATCTTCAACCTGCT-TCCT-ATCAATATAGAGACGCCAAGCCGA-AATGTTCGAT
1 CAAATCTGCTATCTTCGATCTGCTCT-CTGA-CAATACAGAGACGCCAAATCTACTATCTTCGAT
*
45608875 CTACTCTCTGACAATACAGAGACGC
64 CTGCTCTCTGACAATACAGAGACGC
* * * * * * * *
45608900 CGAATCCGCTACCCTCGATCTGCTCTCTGACAATACAGAGGCACCAAATCTACCATCTTCGACCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
* * *
45608965 GCTATCTCACAATACAGAGATGC
66 GCTCTCTGACAATACAGAGACGC
* * *
45608988 CAAATCTGCTATCTTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATCTACGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
* *
45609053 GCTCTCTGACAATACAGGGATGC
66 GCTCTCTGACAATACAGAGACGC
* * * * *
45609076 CAAATCTACTATCTTTGATCCGCT-TCCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATC
1 CAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAGACGCCAAATCTACTATCTTCGATC
*
45609140 TGCTCTCTGACAATACAGGGACGC
65 TGCTCTCTGACAATACAGAGACGC
*
45609164 CAAATTTGCTATC
1 CAAATCTGCTATC
45609177 GGTGATCTAC
Statistics
Matches: 229, Mismatches: 44, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
87 37 0.16
88 192 0.84
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (88 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT
GCTCTCTGACAATACAGAGACGC
Found at i:45609184 original size:44 final size:44
Alignment explanation
Indices: 45608869--45609176 Score: 368
Period size: 44 Copynumber: 7.0 Consensus size: 44
45608859 AGCCGAAATG
* * * * *
45608869 TTCGATCTACTCTCTGACAATACAGAGACGCCGAATCCGCTACC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * * *
45608913 CTCGATCTGCTCTCTGACAATACAGAGG-CACCAAATCTACCATC
1 TTCGATCTGCTCTCTGACAATACAG-GGACGCCAAATCTGCTATC
* * * * *
45608957 TTCGACCTGCTATCTCACAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* *
45609001 TTCGATCTGCTCTTTGACAATACAGGGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * *
45609045 TACGATCTGCTCTCTGACAATACAGGGATGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
* * * *
45609089 TTTGATCCGCT-TCCTGACAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCT-CTGACAATACAGGGACGCCAAATCTGCTATC
*
45609133 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
45609177 GGTGATCTAC
Statistics
Matches: 222, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.01
44 218 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGCTATC
Found at i:45612725 original size:12 final size:12
Alignment explanation
Indices: 45612708--45612732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45612698 TGTTCAAGAT
45612708 TTAGCAATCATG
1 TTAGCAATCATG
45612720 TTAGCAATCATG
1 TTAGCAATCATG
45612732 T
1 T
45612733 CATCAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TTAGCAATCATG
Found at i:45621180 original size:7 final size:7
Alignment explanation
Indices: 45621170--45621205 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
45621160 TTTTATATAC
45621170 TAATAAA
1 TAATAAA
45621177 TAATAAA
1 TAATAAA
45621184 TAATGAAA
1 TAAT-AAA
*
45621192 TAATATA
1 TAATAAA
45621199 TAATAAA
1 TAATAAA
45621206 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:45621194 original size:15 final size:14
Alignment explanation
Indices: 45621170--45621205 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
45621160 TTTTATATAC
45621170 TAATAAATAATAAA
1 TAATAAATAATAAA
*
45621184 TAATGAAATAATATA
1 TAAT-AAATAATAAA
45621199 TAATAAA
1 TAATAAA
45621206 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:45621236 original size:5 final size:5
Alignment explanation
Indices: 45621223--45621322 Score: 57
Period size: 5 Copynumber: 20.2 Consensus size: 5
45621213 TAATATAGGG
* * * *
45621223 AATAA AATAT AATAA AATAT GATATAT AATAA AATAT -ATA- AATAA AATAT
1 AATAT AATAT AATAT AATAT -A-ATAT AATAT AATAT AATAT AATAT AATAT
* * * *
45621273 AATGA- AATAT AA-AT AATAT GATAA AATAT CATAT AA-AT AAAAAT AATAT
1 AAT-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AATAT
45621322 A
1 A
45621323 TACTATTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
4 13 0.18
5 51 0.70
6 5 0.07
7 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (5 bp):
AATAT
Found at i:45621238 original size:10 final size:10
Alignment explanation
Indices: 45621223--45621311 Score: 69
Period size: 10 Copynumber: 8.9 Consensus size: 10
45621213 TAATATAGGG
45621223 AATAAAATAT
1 AATAAAATAT
45621233 AATAAAATAT
1 AATAAAATAT
*
45621243 GAT---ATAT
1 AATAAAATAT
45621250 AATAAAATATAT
1 AAT-AAA-ATAT
45621262 AAATAAAATAT
1 -AATAAAATAT
*
45621273 AATGAAATAT
1 AATAAAATAT
*
45621283 AA-ATAATAT
1 AATAAAATAT
*
45621292 GATAAAATAT
1 AATAAAATAT
*
45621302 CATATAAATA
1 AATA-AAATA
45621312 AAAATAATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 32 0.51
11 9 0.14
12 7 0.11
13 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (10 bp):
AATAAAATAT
Found at i:45621251 original size:17 final size:16
Alignment explanation
Indices: 45621229--45621295 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
45621219 AGGGAATAAA
45621229 ATATAATAAAATATGAT
1 ATATAA-AAAATATGAT
45621246 ATATAATAAAATAT-AT
1 ATATAA-AAAATATGAT
* * *
45621262 AAATAAAATATAATGAA
1 ATATAAAAAAT-ATGAT
*
45621279 ATATAAATAATATGAT
1 ATATAAAAAATATGAT
45621295 A
1 A
45621296 AAATATCATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
15 4 0.10
16 14 0.34
17 23 0.56
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATAAAAAATATGAT
Found at i:45621267 original size:40 final size:45
Alignment explanation
Indices: 45621223--45621320 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 45
45621213 TAATATAGGG
*
45621223 AATAAAATATAATAAAATAT-GAT-ATATAAT-AAA-AT-ATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
* *
45621263 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
45621308 AATAAAA-ATAATA
1 AATAAAATATAATA
45621321 TATACTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 19 0.39
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.14
45 12 0.24
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (45 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
Found at i:45621317 original size:30 final size:29
Alignment explanation
Indices: 45621228--45621322 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
45621218 TAGGGAATAA
45621228 AATATAATAAAATATGATATATAAT-AAAAT
1 AATATAATAAAATAT-ATATA-AATAAAAAT
*
45621258 -ATATAAATAAAATATA-ATGAAATATAAAT
1 AATAT-AATAAAATATATAT-AAATAAAAAT
*
45621287 AATATGATAAAATATCATATAAATAAAAAT
1 AATATAATAAAATAT-ATATAAATAAAAAT
45621317 AATATA
1 AATATA
45621323 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
AATATAATAAAATATATATAAATAAAAAT
Found at i:45621323 original size:17 final size:15
Alignment explanation
Indices: 45621229--45621324 Score: 78
Period size: 15 Copynumber: 6.3 Consensus size: 15
45621219 AGGGAATAAA
45621229 ATAT-AATAAAATAT
1 ATATAAATAAAATAT
45621243 GATATATAAT-AAA-AT
1 -ATATA-AATAAAATAT
45621258 ATATAAATAAAATAT
1 ATATAAATAAAATAT
45621273 A-ATGAAATATAAATA-
1 ATAT-AAATA-AAATAT
*
45621288 ATAT-GATAAAATAT
1 ATATAAATAAAATAT
45621302 CATATAAATAAAAATAAT
1 -ATATAAAT-AAAAT-AT
45621320 ATATA
1 ATATA
45621325 CTATTTTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 13 0.19
15 19 0.28
16 12 0.18
17 13 0.19
18 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (15 bp):
ATATAAATAAAATAT
Found at i:45626265 original size:14 final size:15
Alignment explanation
Indices: 45626248--45626285 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
45626238 AGAAAACCGA
45626248 ATAAAGAAATCCA-G
1 ATAAAGAAATCCAGG
*
45626262 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAGG
45626277 ATAAAGAAA
1 ATAAAGAAA
45626286 CCAAGATACG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.58, C:0.11, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAGG
Found at i:45629263 original size:93 final size:93
Alignment explanation
Indices: 45629151--45629321 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
45629141 GCCCATAAGT
*
45629151 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45629216 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
45629244 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45629309 CGAGTTCGGATGC
66 CGAGCTCGGATGC
45629322 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45629318 original size:46 final size:46
Alignment explanation
Indices: 45629143--45629318 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
45629133 TGTAACCCGC
*
45629143 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
45629189 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
45629235 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
45629282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
45629319 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 70 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:45630808 original size:21 final size:22
Alignment explanation
Indices: 45630777--45630817 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
45630767 GACTGTAAAA
45630777 TTTTATTATTT-TATTATTTTTG
1 TTTTATTATTTAT-TTATTTTTG
45630799 TTTT-TTATTTATTTATTTT
1 TTTTATTATTTATTTATTTT
45630818 ACGGGCCCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTATTATTTATTTATTTTTG
Found at i:45641585 original size:43 final size:44
Alignment explanation
Indices: 45641473--45641599 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 44
45641463 CAATGCCAAC
*
45641473 GTCCCAAACGTGGTTTTACA-AGT-AATCAAATATCGATACCACT
1 GTCCCAAACATGGTTTTACACA-TAAATCAAATATCGATACCACT
* * * *
45641516 GTCCCAAACAGGGTCTTACACA-AAATCAAATA-CGATGTCGA-T
1 GTCCCAAACATGGTTTTACACATAAATCAAATATCGAT-ACCACT
* *
45641558 GTCCCAGACATGGTTTTACACATAAATCATAA-GTCGATACCA
1 GTCCCAAACATGGTTTTACACATAAATCA-AATATCGATACCA
45641600 ATGTTCCAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
42 24 0.36
43 36 0.54
44 7 0.10
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (44 bp):
GTCCCAAACATGGTTTTACACATAAATCAAATATCGATACCACT
Found at i:45649946 original size:47 final size:47
Alignment explanation
Indices: 45649828--45650010 Score: 312
Period size: 47 Copynumber: 3.9 Consensus size: 47
45649818 TACGACTTGG
*
45649828 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
*
45649875 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
45649924 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
* *
45649971 GTATATACACTTTCACATTCATCACATCGGTCATTAGGCC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
45650011 TTACTATCAT
Statistics
Matches: 129, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 84 0.65
49 45 0.35
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
Found at i:45653816 original size:40 final size:40
Alignment explanation
Indices: 45653772--45653886 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
45653762 GAATACACTT
* * * *
45653772 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATACAA
* * *
45653812 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATACAA
* * *
45653852 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGA
45653887 CATCATTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATACAA
Found at i:45654230 original size:29 final size:29
Alignment explanation
Indices: 45654191--45654269 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
45654181 CTTAATAATC
*
45654191 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
45654221 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
45654250 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45654270 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:45654334 original size:12 final size:12
Alignment explanation
Indices: 45654317--45654343 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45654307 GTGCCAATCT
45654317 CACAACCGTGAA
1 CACAACCGTGAA
45654329 CACAACCGTGAA
1 CACAACCGTGAA
45654341 CAC
1 CAC
45654344 TTATTGCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.37, G:0.15, T:0.07
Consensus pattern (12 bp):
CACAACCGTGAA
Found at i:45654338 original size:55 final size:55
Alignment explanation
Indices: 45654274--45654386 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
45654264 GTGCCAATCT
45654274 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
1 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
45654329 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
1 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
45654384 CAC
1 CAC
45654387 TTATTGCCCG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.19
Consensus pattern (55 bp):
CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
Found at i:45656322 original size:37 final size:37
Alignment explanation
Indices: 45656272--45656350 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45656262 TTATTACGAA
* * *
45656272 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
45656309 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
45656346 GTCTT
1 GTCTT
45656351 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:45656547 original size:47 final size:47
Alignment explanation
Indices: 45656469--45656992 Score: 881
Period size: 47 Copynumber: 11.1 Consensus size: 47
45656459 CCCTTCGGGA
* * * * *
45656469 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
45656516 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656563 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45656610 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45656704 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656798 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
45656847 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45656942 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45656989 CTTA
1 CTTA
45656993 CTATCATTTC
Statistics
Matches: 453, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 2 0.00
47 365 0.81
48 40 0.09
49 40 0.09
50 6 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45660849 original size:38 final size:40
Alignment explanation
Indices: 45660748--45660859 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 40
45660738 GAATACACTT
* * * * * *
45660748 CACCAGCATGATTGCT-TTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAA
*
45660787 CACCAGCACGAATGCTCTTCGGAACTTA-TCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAA
*
45660826 CACTAGCACG-ATGCTCTTCGGAACTTAGTCCGGA
1 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGA
45660860 CATCATTCGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.27
39 37 0.59
40 9 0.14
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAA
Found at i:45661206 original size:29 final size:29
Alignment explanation
Indices: 45661167--45661245 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
45661157 CTTAATAATC
*
45661167 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
45661197 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
45661226 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45661246 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:45661331 original size:54 final size:54
Alignment explanation
Indices: 45661250--45661360 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
45661240 GTGCCAATCT
45661250 CACAACCGTGAAACTTATTGCCCGCACACTTAGTGCCAATCTCACAA-CGTGAA
1 CACAACCGTGAAACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
45661303 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
1 CACAACCGTGAA-ACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
45661358 CAC
1 CAC
45661361 TTATTGCCCG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
53 12 0.21
54 35 0.62
55 9 0.16
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (54 bp):
CACAACCGTGAAACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAA
Found at i:45794277 original size:56 final size:56
Alignment explanation
Indices: 45794186--45794308 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
45794176 GAGATTGGCG
* * *
45794186 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
45794243 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
45794298 CTGAGTGTGCG
1 CTAAGTGTGCG
45794309 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:45794295 original size:27 final size:28
Alignment explanation
Indices: 45794186--45794308 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
45794176 GAGATTGGCG
* * * *
45794186 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
45794215 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
45794243 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
45794271 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
45794298 CTGAGTGTGCG
1 CTAAGTGTGCG
45794309 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:45794319 original size:27 final size:27
Alignment explanation
Indices: 45794211--45794321 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
45794201 TAAATTGTAC
* * *
45794211 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45794239 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45794267 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
45794294 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
45794321 A
1 A
45794322 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:45802489 original size:27 final size:28
Alignment explanation
Indices: 45802410--45802502 Score: 161
Period size: 28 Copynumber: 3.4 Consensus size: 28
45802400 TGTACATCAT
*
45802410 TAAGTGTGCGAGTTTGATTATGTAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
45802438 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
45802466 TAAGTGTGCGAG-TTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
*
45802493 TGAGTGTGCG
1 TAAGTGTGCG
45802503 GACTTAATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 24 0.38
28 39 0.62
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATATAGCAC
Found at i:45802513 original size:27 final size:27
Alignment explanation
Indices: 45802410--45802515 Score: 106
Period size: 28 Copynumber: 3.9 Consensus size: 27
45802400 TGTACATCAT
* * *
45802410 TAAGTGTGCGAGTTTGATTATGTAGCAC
1 TAAGTGTGCGA-CTTGAATATATAGCAC
* *
45802438 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGA-CTTGAATATATAGCAC
* *
45802466 TAAGTGTGCGAGTTGATTATATAGCAC
1 TAAGTGTGCGACTTGAATATATAGCAC
*
45802493 TGAGTGTGCGGACTT-AATATATA
1 TAAGTGTGC-GACTTGAATATATA
45802516 CTTTTGAATC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 30 0.42
28 42 0.58
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (27 bp):
TAAGTGTGCGACTTGAATATATAGCAC
Found at i:45810075 original size:43 final size:43
Alignment explanation
Indices: 45810028--45810129 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
45810018 TCCCGGACGT
**
45810028 GGTCTTACATGTAATTC-AATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACATGTAATTCGAATA-CGATGCCGATGTCCCAAACAG
* * * *
45810071 GGTCTTACATG-AAATCGGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCGAATACGATGCCGATGTCCCAAACAG
* *
45810113 GGTCTTATACGTAATTC
1 GGTCTTACATGTAATTC
45810130 TCAATCGAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATTCGAATACGATGCCGATGTCCCAAACAG
Found at i:45812031 original size:12 final size:12
Alignment explanation
Indices: 45812014--45812042 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45812004 TTTAAAACAA
45812014 TTTACAATATAG
1 TTTACAATATAG
45812026 TTTACAATATAG
1 TTTACAATATAG
45812038 TTTAC
1 TTTAC
45812043 TAAAAGCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (12 bp):
TTTACAATATAG
Found at i:45817216 original size:18 final size:18
Alignment explanation
Indices: 45817193--45817231 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
45817183 ATGCCAGGTG
*
45817193 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
45817211 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
45817229 TGT
1 TGT
45817232 TTTCATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:45821154 original size:14 final size:13
Alignment explanation
Indices: 45821135--45821183 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
45821125 ATTTAATGTT
*
45821135 TAATTATATTAGGA
1 TAATTAT-TAAGGA
45821149 TAATTATTAAGAGA
1 TAATTATTAAG-GA
45821163 TAATTATTAAGGA
1 TAATTATTAAGGA
45821176 TAATTATT
1 TAATTATT
45821184 TAGATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:45821193 original size:27 final size:26
Alignment explanation
Indices: 45821141--45821201 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
45821131 TGTTTAATTA
**
45821141 TATTAGGATAATTATTAAGAGATAAT
1 TATTAGGATAATTATTAAGATTTAAT
*
45821167 TATTAAGGATAATTATTTAGATTTAAT
1 TATT-AGGATAATTATTAAGATTTAAT
45821194 T-TTAGGAT
1 TATTAGGAT
45821202 TTAATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 6 0.19
27 20 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (26 bp):
TATTAGGATAATTATTAAGATTTAAT
Found at i:45821220 original size:10 final size:10
Alignment explanation
Indices: 45821207--45821249 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
45821197 AGGATTTAAT
45821207 TTTATTTATC
1 TTTATTTATC
*
45821217 TTTAATTATC
1 TTTATTTATC
45821227 TTTATTTAT-
1 TTTATTTATC
45821236 TTGTATTTATC
1 TT-TATTTATC
45821247 TTT
1 TTT
45821250 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:45823469 original size:45 final size:44
Alignment explanation
Indices: 45823405--45823490 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
45823395 CCAAAACATG
45823405 TGTCACACATATCACGAACTCAGACCACAACTCAATGAGTTCCGT
1 TGTCACACATATCACGAACTCAGA-CACAACTCAATGAGTTCCGT
* * *
45823450 TGTCAC-CTATATCATGAACTCAGACAGAACTCGATGAGTTC
1 TGTCACAC-ATATCACGAACTCAGACACAACTCAATGAGTTC
45823491 AGATTACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (44 bp):
TGTCACACATATCACGAACTCAGACACAACTCAATGAGTTCCGT
Found at i:45825402 original size:117 final size:117
Alignment explanation
Indices: 45825191--45825403 Score: 268
Period size: 117 Copynumber: 1.8 Consensus size: 117
45825181 GGCCAAACAT
* * * *
45825191 GAACTACTGTAGAAACAGAGCGCCCACGTGGGAGCTTTTTTCAGAAACTTTGCTGACATTCCATC
1 GAACTACTGTAGAAAAAGAGCACCCACGTGGGAGCTTTTTCCAGAAACTTTGCTCACATTCCATC
* * * *
45825256 CTGCTTGAAGCGTTTTTGACACTATTTGTTCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCATTTCTGACACTAGTTGTTCTTCTCAAAATTATTTTTTCAG
* * * * * *
45825308 GAACTATTGTAGAAAAATAGCATCCACGTGGGAGCTTTTTCCAGTAA-TTT-TTCACATAGTGCA
1 GAACTACTGTAGAAAAAGAGCACCCACGTGGGAGCTTTTTCCAGAAACTTTGCTCACAT--TCCA
45825371 TCCTACTTGAAGCATTTCTGACACTAGTTGTTC
64 TCCTACTTGAAGCATTTCTGACACTAGTTGTTC
45825404 ATAAACGTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
115 5 0.06
116 3 0.04
117 72 0.90
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (117 bp):
GAACTACTGTAGAAAAAGAGCACCCACGTGGGAGCTTTTTCCAGAAACTTTGCTCACATTCCATC
CTACTTGAAGCATTTCTGACACTAGTTGTTCTTCTCAAAATTATTTTTTCAG
Found at i:45825534 original size:33 final size:34
Alignment explanation
Indices: 45825496--45825605 Score: 120
Period size: 33 Copynumber: 3.3 Consensus size: 34
45825486 AAACTAACCC
* * *
45825496 TAATTTAATTAATTT-TAACCCTAAACCCTAATT
1 TAATTTAATTTATTTAAAACCATAAACCCTAATT
*
45825529 TAATTT-ATTTATTTAAAACCTTTAAACCCTAATT
1 TAATTTAATTTATTTAAAACC-ATAAACCCTAATT
* *
45825563 T-ACTTAATTTATTTAAAATCATAAACCCTAATT
1 TAATTTAATTTATTTAAAACCATAAACCCTAATT
*
45825596 T-AGTTAATTT
1 TAATTTAATTT
45825606 CTATAAAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
32 7 0.10
33 34 0.51
34 26 0.39
ACGTcount: A:0.39, C:0.15, G:0.01, T:0.45
Consensus pattern (34 bp):
TAATTTAATTTATTTAAAACCATAAACCCTAATT
Found at i:45825557 original size:34 final size:33
Alignment explanation
Indices: 45825491--45825605 Score: 132
Period size: 34 Copynumber: 3.6 Consensus size: 33
45825481 TAAAAAAACT
*
45825491 AACCCTAATTTAATTAA--T-TTT--AACCCTA
1 AACCCTAATTTAATTAATTTATTTAAAACCATA
* *
45825519 AACCCTAATTTAATTTATTTATTTAAAACCTTTA
1 AACCCTAATTTAATTAATTTATTTAAAACC-ATA
* *
45825553 AACCCTAATTTACTTAATTTATTTAAAATCATA
1 AACCCTAATTTAATTAATTTATTTAAAACCATA
*
45825586 AACCCTAATTTAGTTAATTT
1 AACCCTAATTTAATTAATTT
45825606 CTATAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
28 16 0.22
30 1 0.01
31 3 0.04
33 25 0.34
34 29 0.39
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (33 bp):
AACCCTAATTTAATTAATTTATTTAAAACCATA
Found at i:45825705 original size:34 final size:35
Alignment explanation
Indices: 45825647--45825727 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 35
45825637 TTAAAATCCA
*
45825647 CTAAAACCTTAAACCCTAACTTATTTTAACAAAAAC
1 CTAAAACC-TAAACCCTAAATTATTTTAACAAAAAC
** *
45825683 CTAAAACCTAAA-CCTAAATTATTTTAGGAAAACC
1 CTAAAACCTAAACCCTAAATTATTTTAACAAAAAC
45825717 CT-AAACCTAAA
1 CTAAAACCTAAA
45825728 AACCCTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 9 0.22
34 20 0.49
35 4 0.10
36 8 0.20
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.26
Consensus pattern (35 bp):
CTAAAACCTAAACCCTAAATTATTTTAACAAAAAC
Found at i:45829782 original size:27 final size:27
Alignment explanation
Indices: 45829751--45829901 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
45829741 TAAATTGTAC
45829751 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
45829778 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45829805 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45829833 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45829860 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45829887 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45829902 GACTCAATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45829838 original size:55 final size:55
Alignment explanation
Indices: 45829750--45829901 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
45829740 TTAAATTGTA
* *
45829750 CAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * **
45829804 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
45829859 TAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG
45829902 GACTCAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 38 0.44
55 48 0.56
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (55 bp):
CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:45829892 original size:82 final size:82
Alignment explanation
Indices: 45829751--45829901 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 82
45829741 TAAATTGTAC
* * * *
45829751 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
45829816 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
* * ** * *
45829833 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
45829898 TGCG
66 TGCG
45829902 GACTCAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:45833535 original size:27 final size:27
Alignment explanation
Indices: 45833495--45833547 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
45833485 GTCATGTGAG
* *
45833495 ATTGAATGGCAAATTATTGTTACATGA
1 ATTGAATGGCAAATTACTATTACATGA
**
45833522 ATTGAATGTTAAATTACTATTACATG
1 ATTGAATGGCAAATTACTATTACATG
45833548 GGTTGTATGA
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:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTGAATGGCAAATTACTATTACATGA
Found at i:45836267 original size:27 final size:27
Alignment explanation
Indices: 45836226--45836279 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45836216 TGTCATGTGA
* *
45836226 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
45836253 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
45836280 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Done.