Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_pilon, whole genome shotgun sequence
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: 1024377
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 5 of 5
Found at i:965488 original size:42 final size:43
Alignment explanation
Indices: 965325--965518 Score: 171
Period size: 44 Copynumber: 4.5 Consensus size: 43
965315 TCTATTGTAA
* * * * *
965325 CGTTTTTTGAACAAACGCCGTAAAAGGTCGATATCTATAGCGG
1 CGTTTTTAGAACAAACGCCGCAAAAGGTCAAGACCTATAGCGG
* * * * * * *
965368 CATTTCTTAAAAAAAACGCCGTAAAAAGTCATGATCTATAGCGG
1 CGTTT-TTAGAACAAACGCCGCAAAAGGTCAAGACCTATAGCGG
* * * *
965412 TGTTTTTGGATACAAAAGCCGCAAAAGAG-C-AGACCTATAACGG
1 CGTTTTTAGA-ACAAACGCCGCAAAAG-GTCAAGACCTATAGCGG
965455 CGTTTTTAGAACAAACGCCGCAAAAGGT-AAGACCTATAGCGG
1 CGTTTTTAGAACAAACGCCGCAAAAGGTCAAGACCTATAGCGG
965497 CGTTTTTTA-ACACAAACGCCGC
1 CG-TTTTTAGA-ACAAACGCCGC
965519 TAATTACCTT
Statistics
Matches: 121, Mismatches: 23, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.25
43 42 0.35
44 47 0.39
45 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (43 bp):
CGTTTTTAGAACAAACGCCGCAAAAGGTCAAGACCTATAGCGG
Found at i:969411 original size:83 final size:83
Alignment explanation
Indices: 969312--969633 Score: 398
Period size: 83 Copynumber: 3.9 Consensus size: 83
969302 ATGACAATTA
* * * * *
969312 CGGCATTTGGTATTAAAATGCCACTAAAGTACACGTCTACAGCGGCGTTTGTATGAAAACGCCAC
1 CGGCGTTTGGTATTAAAACGCCACTAAAGTACATGTCTATAGCGGCGTTTGTATAAAAACGCCAC
969377 TAAAGTATGAGTTTATAG
66 TAAAGTATGAGTTTATAG
* ** *
969395 CAGCGTTTGGTATTAAAACGCCA-TAAACGTATGTGTCTATAGCGGCGTTTGTGTAAAAACGCCA
1 CGGCGTTTGGTATTAAAACGCCACTAAA-GTACATGTCTATAGCGGCGTTTGTATAAAAACGCCA
* *
969459 CTAAAGTACGAGTCTATAG
65 CTAAAGTATGAGTTTATAG
* * ** * * *
969478 CGGTGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCAGTGTTTGTGTAAAAACGCCAC
1 CGGCGTTTGGTATTAAAACGCCACTAAAGTACATGTCTATAGCGGCGTTTGTATAAAAACGCCAC
969543 TAAAGTATGAGTTTATAG
66 TAAAGTATGAGTTTATAG
* * * *
969561 TGGCGTTT-GTATAAAAATGCCACTAAAAGTACGA-GTCTATAGCGACGTTTGTATAAAAACGCC
1 CGGCGTTTGGTATTAAAACGCCACT-AAAGTAC-ATGTCTATAGCGGCGTTTGTATAAAAACGCC
969624 ACTAAAGTAT
64 ACTAAAGTAT
969634 AGTATTTTGC
Statistics
Matches: 206, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
82 17 0.08
83 186 0.90
84 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (83 bp):
CGGCGTTTGGTATTAAAACGCCACTAAAGTACATGTCTATAGCGGCGTTTGTATAAAAACGCCAC
TAAAGTATGAGTTTATAG
Found at i:969601 original size:166 final size:166
Alignment explanation
Indices: 969317--969632 Score: 445
Period size: 166 Copynumber: 1.9 Consensus size: 166
969307 AATTACGGCA
* * * *
969317 TTTGGTATTAAAATGCCACTAAAGTACACGTCTACAGCGGCGTTTGTATGAAAACGCCACTAAAG
1 TTTGGTATTAAAACGCCACAAAAGTACACGTCTACAGCAGCGTTTGTATAAAAACGCCACTAAAG
* * * * *
969382 TATGAGTTTATAGCAGCGTTTGGTATTAAAACGCCATAAACGTATGTGTCTATAGCGGCGTTTGT
66 TATGAGTTTATAGCAGCGTTTGGTATAAAAACGCCATAAAAGTACGAGTCTATAGCGACGTTTGT
*
969447 GTAAAAACGCCACTAAAGTACGAGTCTATAGCGGTG
131 ATAAAAACGCCACTAAAGTACGAGTCTATAGCGGTG
*** * * *
969483 TTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCAGTGTTTGTGTAAAAACGCCACTAAAG
1 TTTGGTATTAAAACGCCACAAAAGTACACGTCTACAGCAGCGTTTGTATAAAAACGCCACTAAAG
** *
969548 TATGAGTTTATAGTGGCGTTT-GTATAAAAATGCCACTAAAAGTACGAGTCTATAGCGACGTTTG
66 TATGAGTTTATAGCAGCGTTTGGTATAAAAACGCCA-TAAAAGTACGAGTCTATAGCGACGTTTG
969612 TATAAAAACGCCACTAAAGTA
130 TATAAAAACGCCACTAAAGTA
969633 TAGTATTTTG
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
165 12 0.09
166 118 0.91
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (166 bp):
TTTGGTATTAAAACGCCACAAAAGTACACGTCTACAGCAGCGTTTGTATAAAAACGCCACTAAAG
TATGAGTTTATAGCAGCGTTTGGTATAAAAACGCCATAAAAGTACGAGTCTATAGCGACGTTTGT
ATAAAAACGCCACTAAAGTACGAGTCTATAGCGGTG
Found at i:969861 original size:21 final size:21
Alignment explanation
Indices: 969832--969874 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
969822 ATATAAATTA
* *
969832 TGTATCGATGCACTGCTACAG
1 TGTACCGATACACTGCTACAG
969853 TGTACCGATACACTGCTACAG
1 TGTACCGATACACTGCTACAG
969874 T
1 T
969875 ACTTTCAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (21 bp):
TGTACCGATACACTGCTACAG
Found at i:970590 original size:31 final size:31
Alignment explanation
Indices: 970552--970739 Score: 286
Period size: 31 Copynumber: 6.1 Consensus size: 31
970542 GCTCGTATAA
970552 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
970583 TAATCTGTCCATATGTCCCGAAGAACAAAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
970614 TAATCTGTCCAAATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
970645 TAATCTGTCCATATGTTCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* ** *
970676 TAATATGTTAATATGTTCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* * *
970707 TAAACTATACATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
970738 TA
1 TA
970740 GCCCTCGACT
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 143 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCGAAGAACATAGG
Found at i:972214 original size:17 final size:17
Alignment explanation
Indices: 972192--972227 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
972182 GCTTGATATA
972192 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
972209 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
972226 AT
1 AT
972228 GTTTCAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:972864 original size:42 final size:42
Alignment explanation
Indices: 972786--972888 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 42
972776 GATGCCACAG
* *
972786 GGGTACATGCCCATCCCACCAGTTAAGATGCCATCTCCGCAA
1 GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
* * * ** *
972828 GGGTATATGCCCAGCCCACCAATTCATATGTTATCTCCGCAT
1 GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
* * *
972870 GGTTACATTCCTAGCCCAC
1 GGGTACATGCCCAGCCCAC
972889 AGGGGTACAT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (42 bp):
GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
Found at i:972906 original size:21 final size:21
Alignment explanation
Indices: 972873--972927 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
972863 TCCGCATGGT
* * *
972873 TACATTCCTAGCCCACAGGGG
1 TACATACCCAGCCCACAAGGG
** *
972894 TACATACCCAGCCTGCAAGGT
1 TACATACCCAGCCCACAAGGG
972915 TACATACCCAGCC
1 TACATACCCAGCC
972928 TGCAGGGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.18
Consensus pattern (21 bp):
TACATACCCAGCCCACAAGGG
Found at i:972928 original size:21 final size:21
Alignment explanation
Indices: 972894--972936 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
972884 CCCACAGGGG
972894 TACATACCCAGCCTGCAAGGT
1 TACATACCCAGCCTGCAAGGT
*
972915 TACATACCCAGCCTGCAGGGT
1 TACATACCCAGCCTGCAAGGT
972936 T
1 T
972937 TTATGACACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (21 bp):
TACATACCCAGCCTGCAAGGT
Found at i:973486 original size:24 final size:23
Alignment explanation
Indices: 973458--973537 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
973448 TTACAAATCC
973458 AAATTCAACTTAATATTCCAATTA
1 AAATTCAACTT-ATATTCCAATTA
* * * * *
973482 AAATTTAAAATTTTATTCAAAATTC
1 AAA-TTCAACTTATATTC-CAATTA
*
973507 AAAGTCAACTTTATATTCCAATTA
1 AAATTCAAC-TTATATTCCAATTA
*
973531 AAGTTCA
1 AAATTCA
973538 CAAAGAAAGT
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (23 bp):
AAATTCAACTTATATTCCAATTA
Found at i:974159 original size:136 final size:135
Alignment explanation
Indices: 973792--974297 Score: 664
Period size: 137 Copynumber: 3.7 Consensus size: 135
973782 ATAACGAATA
* * *
973792 ATAGGTGTTGACATGAATAGTGCCCTGTCGGGGGACATCACACATAATAGGACAATTATAATATA
1 ATAGGTGTTGATATGAATAGTGCCCCGT-GGGGGACATCACACATAATAGGACAATTATAACATA
* * **
973857 TTCTCTGACAAAAAGGAAAGATGCGTCGCACAAGAAATACTTTCACCACATTGTTGCGTCCCCTC
65 TTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTTCACCA-ATTGTTGCGTCCCCTC
*
973922 AAAAATG
129 AAACATG
* * * *
973929 ATAGATGTTGATGTGAATAGTGTCCCAC-CGGGGGACATCACACATAATAAGACAATTATAACAT
1 ATAGGTGTTGATATGAATAGTG-CCC-CGTGGGGGACATCACACATAATAGGACAATTATAACAT
* * *
973993 ATTCTCTGACAAAAAGGAAATG-TGCATCCCAAAAGAAGCACTTTCACCATATTGTTGCGTCCCC
64 ATTCTCTGACAAAAAGGAAA-GACGCGTCCCACAAGAAGCACTTTCACCA-ATTGTTGCGTCCCC
974057 TCAAACATG
127 TCAAACATG
* * *
974066 ATGGGTGTTGATGTGAATAGTGCCCCGTGGGGGACATCACACATAATAGGGCAATTATAACATAT
1 ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
* *
974131 TATCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGC-TT-A-C-ATTGTTGCGTCCCCTCAA
66 TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTTCACCAATTGTTGCGTCCCCTCAA
974192 ACATG
131 ACATG
* * * *
974197 ATAGGTGTTGATATGAACAGTGCCTCGTGGGGGACATCACACATAATAGGGCAATTATAACCTAT
1 ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
* * * *
974262 TTTCTGACAAAAAAGAAAGGCACGTCCCACAAGAAG
66 TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAG
974298 TGCTTTTGGT
Statistics
Matches: 331, Mismatches: 33, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
131 115 0.35
133 1 0.00
134 1 0.00
135 4 0.01
136 70 0.21
137 136 0.41
138 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (135 bp):
ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTTCACCAATTGTTGCGTCCCCTCAA
ACATG
Found at i:994264 original size:36 final size:36
Alignment explanation
Indices: 994108--994297 Score: 238
Period size: 36 Copynumber: 5.2 Consensus size: 36
994098 AAGTCAATCC
994108 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
994144 GAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* *
994180 GAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
994216 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * * *
994252 TAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACCATCT
994289 TAAGCCTTC
1 TAAGCCTTC
994298 TCAGAAGAGT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
35 2 0.01
36 119 0.88
37 14 0.10
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
Found at i:994744 original size:51 final size:51
Alignment explanation
Indices: 994679--995396 Score: 613
Period size: 51 Copynumber: 13.6 Consensus size: 51
994669 AAGATTATTT
* *
994679 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
994730 AAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
994781 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
994832 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * *
994884 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
994936 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
994987 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTC
995041 GAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGA-TGTTC
* * * * ** *
995096 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTC
1 GAGTTCCATACTCCCTAGAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGTTC
** * * *
995151 GAGTTTTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCATTTTCAGAAGATCATTC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTT--GAAGAT-GTTC
* * * * * *
995206 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
1 GAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * * * ** * *
995262 GAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTTACAGAAGATTATTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * * **
995313 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* *
995367 GAGTTCCATAATCCCTAGAGAAATAGGGAG
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAG
995397 TAGACCCGAT
Statistics
Matches: 560, Mismatches: 71, Indels: 69
0.80 0.10 0.10
Matches are distributed among these distances:
50 1 0.00
51 260 0.46
52 6 0.01
53 44 0.08
54 89 0.16
55 97 0.17
56 58 0.10
57 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:994959 original size:155 final size:157
Alignment explanation
Indices: 994679--995396 Score: 705
Period size: 155 Copynumber: 4.5 Consensus size: 157
994669 AAGATTATTT
* * **
994679 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTG-A-AGATGTCCAAGTTCCATACT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* * *
994742 CCCTAGAGAAAGAAGGAGCGAACCCGTGT-GAAGA-TATGCGAGTTCTATACTCCTTAAAGAAAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAG
*
994805 AAGGAGCGAACCCGTTTGAAGATGTTC
131 AAGGAGCGAACCCGTTAGAAGATGTTC
* * * *
994832 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
*
994897 CCCTAGAGAAAGAGGGAGCGAACCCGTGT-GAAGA-TATCCGAGTTCTATACTCCCTAAAGAAAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAG
* *
994960 AGGGAGCGAACCCGTTTGAAGATGTTC
131 AAGGAGCGAACCCGTTAGAAGATGTTC
* *
994987 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGT-TCGAGTTCCATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* * * **
995051 CTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTTCCTGGA
64 CTCCCTAG-AGAAAGAGGGAGCGAACCCG-TGTC-GAAGATTATTCGAGTTCTATACTCCCTAAA
* *
995115 GAAAG-AGCGAAGCGAACCCGTAAGAAGAAGATCTTC
126 GAAAGAAG-G-AGCGAACCCGT---TAGAAGATGTTC
* * * * *
995151 GAGTTTTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCATTTTCAGAAGATCAT-TC-GAGTTCT
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTT--GAAGA-GATGTCTGAGTTCC
* * * * * *
995213 ATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATACTCCTT
61 ATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT-C-GAAGATTATTCGAGTTCTATACTCCCT
** *
995278 AAAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTC
123 AAAGAAAGAAGGAGCGAACCCG-TT--AGAAGA-TGTTC
* * **
995313 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGT-TCGAGTTCCATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
995377 ATCCCTAGAGAAATAGGGAG
64 CTCCCTAGAGAAAGAGGGAG
995397 TAGACCCGAT
Statistics
Matches: 474, Mismatches: 58, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
153 38 0.08
154 1 0.00
155 146 0.31
156 41 0.09
157 2 0.00
159 12 0.03
160 39 0.08
161 36 0.08
162 37 0.08
163 2 0.00
164 42 0.09
165 20 0.04
166 52 0.11
167 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (157 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAG
AAGGAGCGAACCCGTTAGAAGATGTTC
Found at i:995032 original size:206 final size:207
Alignment explanation
Indices: 994668--995348 Score: 746
Period size: 206 Copynumber: 3.2 Consensus size: 207
994658 TGAAGAAAAT
* * * * *
994668 GAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCCAAG
1 GAAGATT-GTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAG
* * * * * *
994733 TTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTA
65 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCCTA
*
994798 AAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGC
130 AAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGC
994863 GAACCCGTTTGAA
195 GAACCCGTTTGAA
994876 G-AGA-TGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAG
1 GAAGATTGT-TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAG
*
994939 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTA
65 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCCTA
* * * * *
995004 GAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTCGAGTTCCATACTCCCTGAAGAAAGAGGG
130 AAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGG
**
995069 AGCGAACCCGTTTTCA
192 AGCGAACCCGTTTGAA
* * * * * * *
995085 GAAGATTGTTCGAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTT
1 GAAGATTGTT-GAGTTCCATACTCCCTAGAGAAAGAG-GGAGCGAACCCGT--G-TGAAGATATC
* * * *
995150 CGAGTTTTATACTCCCTGAAGAAAGAGGGAGCGAGCCCATTTTCAGAAGATCATTCGAGTTCTAT
61 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTT--GAAGAT-ATTCGAGTTCTAT
* * * * *
995215 ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATACTCCTTAA
122 ACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTCGAGTTCCATACTCCTTAA
** *
995280 AGAAA-AA-G-G-GAATTCGCTT-ACA
182 AGAAAGAAGGAGCGAACCCGTTTGA-A
* * *
995302 GAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACC
1 GAAGATTGTT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACC
995349 TGTAAGAAGA
Statistics
Matches: 401, Mismatches: 51, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
205 1 0.00
206 135 0.34
207 3 0.01
208 1 0.00
209 46 0.11
210 4 0.01
211 26 0.06
212 12 0.03
214 1 0.00
215 42 0.10
216 12 0.03
217 41 0.10
218 7 0.02
219 19 0.05
220 24 0.06
221 24 0.06
223 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (207 bp):
GAAGATTGTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGT
TCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCCTAA
AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCG
AACCCGTTTGAA
Found at i:995447 original size:55 final size:55
Alignment explanation
Indices: 995385--996587 Score: 1247
Period size: 55 Copynumber: 22.1 Consensus size: 55
995375 TAATCCCTAG
* * * * *
995385 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
995440 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
995495 A-AGAATAGGGAGTAGACACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * * *
995550 AGGAATAGGGAGCATACAC-GTT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGGGCAGACGCAATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* ** * * *
995604 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
995657 AGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
995712 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
995767 AGAAATAGGGGGCAGACGTAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
995820 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
995875 AGAAGTAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
995928 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
995983 AGAAATAGGGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* ** *
996036 AGAAAAAGGGGGCAGACGCAATCATTGAAGTTTGTTCG-GATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * * * *
996091 AGAAATAGGGGGCAGATGCGATTGATGAAGATT-AT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
996144 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
996199 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * * *
996254 AGGAATAGGGAGCATACAC-GTT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGGGCAGACGCAATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* ** * * *
996308 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
996361 AGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTTA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
996416 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
996471 AGAAATAGGGGGCAGACGCAATTTTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * *
996526 A-AGAATAGGGAGTAAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
996581 AGGAATA
1 AGAAATA
996588 AGGAGCAGGC
Statistics
Matches: 985, Mismatches: 125, Indels: 76
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.00
53 264 0.27
54 94 0.10
55 622 0.63
56 4 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (55 bp):
AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:995831 original size:108 final size:109
Alignment explanation
Indices: 995385--996587 Score: 1251
Period size: 108 Copynumber: 11.1 Consensus size: 109
995375 TAATCCCTAG
* * * * *
995385 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGG
* * * * * *
995449 GAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATT-GTCGGGTCTTATACTCTCTGA
* * * * *
995495 A-AGAATAGGGAGTAGACACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGG
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * * * * * * * * *
995559 GAGCATACACGTTTTCA-AAAGATTTTCGAGT-TCTATACTCCCTGG
65 GGGCAGACGCG-ATTGATGAAGATTGTCGGGTCT-TATACTCTCTGA
* ** * * *
995604 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAG-ACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * * *
995666 GGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
*
995712 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
**
995777 GGCAGACGTAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
995820 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAGTAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
*
995885 GGCAGACGCAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
995928 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
*
995993 GGCAGATGCGATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* ** *
996036 AGAAAAAGGGGGCAGACGCAATCATTGAAGTTTGTTCG-GATCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGG
* *
996100 GGGCAGATGCGATTGATGAAGATTAT-GGGTCTTATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* * * * *
996144 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAG
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAG
* * * * * *
996207 GGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
64 GGGGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
* * * * * * * * *
996254 AGGAATAGGGAGCATACAC-GTT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAGAAAGA
1 AGAAATAGGGGGCAGACGCAATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATA
** * *
996315 GGGAAC-GAACCCGATTGTTGAAGATTGT-GGGTCTTATACTCTCTGA
63 GGGGGCAG-ACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* * * *
996361 AGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTTAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
* * * *
996426 GGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
* * *
996471 AGAAATAGGGGGCAGACGCAATTTTTGAAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGG
* * * * * * *
996535 GAGTAAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
*
996581 AGGAATA
1 AGAAATA
996588 AGGAGCAGGC
Statistics
Matches: 940, Mismatches: 121, Indels: 64
0.84 0.11 0.06
Matches are distributed among these distances:
106 1 0.00
107 75 0.08
108 488 0.52
109 98 0.10
110 276 0.29
111 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (109 bp):
AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
Found at i:996737 original size:54 final size:54
Alignment explanation
Indices: 996605--996759 Score: 188
Period size: 54 Copynumber: 2.9 Consensus size: 54
996595 GGCACGTCTT
**
996605 CAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTTTG
1 CAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTAGG
* * *
996659 CAGAAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGA-ACGAACCCGTAGG
1 CAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGA-GAACCCGTAGG
* * * * *
996713 CAAAAGATTGTACGAGTT-TCTACTCCATGAAGGAATAGGGAGTGAAC
1 CAAAAGATT-TTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAAC
996760 ATGTTTTCCA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 78 0.92
55 6 0.07
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
CAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTAGG
Found at i:1003376 original size:147 final size:148
Alignment explanation
Indices: 1003127--1003429 Score: 441
Period size: 147 Copynumber: 2.0 Consensus size: 148
1003117 GAGTCGAGGG
* * * * * *
1003127 TCTATGCGGTCCTTCGGGACATATGTATATTCTTTGAAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGAAACATGTATGAAGTCTTTAAGGCACATA
* * *
1003192 CTTGGTCCTTAGTATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATT
65 CTTGATCCCTAG-ATATATATATATGATTCTTAAGGAATGATATGTGATCCTTATGGACATTATT
1003257 ATATGGCACTACGGTGCAAT
129 ATATGGCACTACGGTGCAAT
*
1003277 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGAG-ACAT
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGAAACATGTATGAAGTCTT-TAAG-GCACAT
*
1003340 ACTTGATCCCTAG-TATATGTATATGATTCTTAAGGAATGATATGTGATCCTTATGGACATTATT
64 ACTTGATCCCTAGATATATATATATGATTCTTAAGGAATGATATGTGATCCTTATGGACATTATT
*
1003404 ATATGGCACTACGGTGTAAT
129 ATATGGCACTACGGTGCAAT
1003424 TCTACG
1 TCTACG
1003430 TGCACTTCGG
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
147 74 0.53
148 29 0.21
149 18 0.13
150 18 0.13
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGAAACATGTATGAAGTCTTTAAGGCACATAC
TTGATCCCTAGATATATATATATGATTCTTAAGGAATGATATGTGATCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:1003638 original size:21 final size:21
Alignment explanation
Indices: 1003614--1003674 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1003604 ATAAATAATT
*
1003614 TGATGATAATGATAGA-GATAA
1 TGATAATAAT-ATAGATGATAA
*
1003635 TGATAATAATATATATGATAA
1 TGATAATAATATAGATGATAA
* * *
1003656 TGCTAAGAAAATAGATGAT
1 TGATAATAATATAGATGAT
1003675 GATATATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATAATAATATAGATGATAA
Found at i:1003680 original size:33 final size:33
Alignment explanation
Indices: 1003616--1003681 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
1003606 AAATAATTTG
*
1003616 ATGATAATGATAGAGATAATGATAATAATATAT
1 ATGATAATGATAGAGAAAATGATAATAATATAT
* * *
1003649 ATGATAATGCTA-AGAAAATAGATGATGATATAT
1 ATGATAATGATAGAGAAAAT-GATAATAATATAT
1003682 GTACATGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGATAATGATAGAGAAAATGATAATAATATAT
Found at i:1006822 original size:64 final size:63
Alignment explanation
Indices: 1006737--1006897 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
1006727 TTGTTTAAGG
* * * *
1006737 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * *
1006801 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
* *
1006865 TGCATCGATGTAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1006898 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.73
65 21 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:1008557 original size:148 final size:147
Alignment explanation
Indices: 1008246--1008547 Score: 480
Period size: 148 Copynumber: 2.0 Consensus size: 147
1008236 GAGTCGAGGG
* * * * *
1008246 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGCTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAGCTCTTTAAGACACATA
* *
1008311 CTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGACATTATTATA
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGACATTATTATA
1008376 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
* *
1008393 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAG-TCTTATAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATG-AGCTCTT-TAAGACACA
1008457 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATT
64 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAT-GACATTATT
*
1008522 ATATGGCACTACGGTGTAAT
128 ATATGGCACTACGGTGCAAT
1008542 TCTACG
1 TCTACG
1008548 TGCACTTCGG
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
147 46 0.32
148 62 0.44
149 34 0.24
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (147 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAGCTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGACATTATTATA
TGGCACTACGGTGCAAT
Found at i:1016012 original size:22 final size:24
Alignment explanation
Indices: 1015987--1016033 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
1015977 ATTTATACTC
*
1015987 ATTCACGTATA-CAT-TAATATAT
1 ATTCACGTATATCATATAACATAT
*
1016009 ATTCATGTATATCATATAACATAT
1 ATTCACGTATATCATATAACATAT
1016033 A
1 A
1016034 CAATAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTCACGTATATCATATAACATAT
Found at i:1019095 original size:13 final size:13
Alignment explanation
Indices: 1019077--1019103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1019067 GTGGCCGATG
1019077 TGGTTAATCAACA
1 TGGTTAATCAACA
1019090 TGGTTAATCAACA
1 TGGTTAATCAACA
1019103 T
1 T
1019104 TCGTTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGGTTAATCAACA
Found at i:1019492 original size:28 final size:29
Alignment explanation
Indices: 1019452--1019506 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
1019442 CCTAAATTAA
1019452 TTTGATGTCATTGCTTACATC-ATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1019480 TTTGATGTCATTGCTTACATCAATTTA
1 TTTGATGTCATTGCTTACATCAATTTA
1019507 ATTAGGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:1024128 original size:29 final size:29
Alignment explanation
Indices: 1024094--1024152 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1024084 CCTAAATTAA
1024094 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1024123 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1024152 T
1 T
1024153 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Done.