Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009595.1 Hibiscus syriacus cultivar Beakdansim tig00116974_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: 1046665
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:870224 original size:28 final size:27
Alignment explanation
Indices: 870171--870229 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
870161 AATATCGTAT
* * *
870171 AAATAAAAAACAAAAAGAAATAAAATCA
1 AAATAAAAAAAAAAAAG-GATTAAATCA
*
870199 AAATAAAAAAAATAAAAGGATTAAATTA
1 AAATAAAAAAAA-AAAAGGATTAAATCA
870227 AAA
1 AAA
870230 GGGAAACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.15
Consensus pattern (27 bp):
AAATAAAAAAAAAAAAGGATTAAATCA
Found at i:875610 original size:13 final size:13
Alignment explanation
Indices: 875592--875619 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
875582 AAATAAGTTG
875592 AAAAAAGTCAAAA
1 AAAAAAGTCAAAA
875605 AAAAAAGTCAAAA
1 AAAAAAGTCAAAA
875618 AA
1 AA
875620 TGATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAAGTCAAAA
Found at i:875824 original size:34 final size:30
Alignment explanation
Indices: 875786--875854 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
875776 TCGATATAAC
*
875786 AATTTAAGGCAAAATAGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTATTTGGACTT-AATTG
875820 AATTT-ACAAAATGTATTTGGACTTAATTG
1 AATTTAACAAAATGTATTTGGACTTAATTG
875849 AATTTA
1 AATTTA
875855 TTCAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (30 bp):
AATTTAACAAAATGTATTTGGACTTAATTG
Found at i:875861 original size:31 final size:31
Alignment explanation
Indices: 875795--875854 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
875785 CAATTTAAGG
*
875795 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1 CAAAATAGTATTTGGACTTGAATTGAATTTA
875826 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATAGTATTTGGACTTGAATTGAATTTA
875855 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATAGTATTTGGACTTGAATTGAATTTA
Found at i:876096 original size:21 final size:21
Alignment explanation
Indices: 876072--876113 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
876062 ATTTGAATAT
*
876072 TATGAA-GGGATATCGATTCCC
1 TATGAATGGG-TACCGATTCCC
876093 TATGAATGGGTACCGATTCCC
1 TATGAATGGGTACCGATTCCC
876114 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (21 bp):
TATGAATGGGTACCGATTCCC
Found at i:876176 original size:21 final size:21
Alignment explanation
Indices: 876143--876182 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
876133 TTTTTGCAGA
*
876143 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
876165 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
876183 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:876437 original size:34 final size:32
Alignment explanation
Indices: 876398--876467 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
876388 TTTTGTAAAG
*
876398 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
876432 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
876464 GGGA
1 GGGA
876468 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:878513 original size:23 final size:23
Alignment explanation
Indices: 878482--878557 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
878472 GAGACTCGAA
878482 CTCGATTCAAGCTCAATTTTAAG
1 CTCGATTCAAGCTCAATTTTAAG
* *
878505 CTTGATTCAAGTTCAATTTTAAG
1 CTCGATTCAAGCTCAATTTTAAG
*
878528 CTCGATTCAAGCTCGAA--TCAAG
1 CTCGATTCAAGCTC-AATTTTAAG
878550 CTCGATTC
1 CTCGATTC
878558 TTAGCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 12 0.26
23 33 0.70
24 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (23 bp):
CTCGATTCAAGCTCAATTTTAAG
Found at i:878541 original size:11 final size:11
Alignment explanation
Indices: 878482--878557 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
878472 GAGACTCGAA
878482 CTCGATTCAAG
1 CTCGATTCAAG
* *
878493 CTCAATTTTAAG
1 CTCGA-TTCAAG
*
878505 CTTGATTCAAG
1 CTCGATTCAAG
* * *
878516 TTCAATTTTAAG
1 CTCGA-TTCAAG
878528 CTCGATTCAAG
1 CTCGATTCAAG
*
878539 CTCGAATCAAG
1 CTCGATTCAAG
878550 CTCGATTC
1 CTCGATTC
878558 TTAGCCAAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
11 33 0.67
12 16 0.33
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:880500 original size:31 final size:31
Alignment explanation
Indices: 880462--880553 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
880452 GGGTCGAGGG
880462 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
880493 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
880524 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
880554 GTCCTTCGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:882330 original size:14 final size:14
Alignment explanation
Indices: 882313--882365 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
882303 GGTCTTTGGG
882313 TTTAGGGTTTATAA
1 TTTAGGGTTTATAA
*
882327 TTTAGGGTTTATGA
1 TTTAGGGTTTATAA
* * *
882341 TTTATGATTTATAG
1 TTTAGGGTTTATAA
*
882355 TTTAGAGTTTA
1 TTTAGGGTTTA
882366 GGGTGTAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTATAA
Found at i:882334 original size:21 final size:21
Alignment explanation
Indices: 882310--882365 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
882300 TTAGGTCTTT
882310 GGGTTTAGGGTTTATAATTTA
1 GGGTTTAGGGTTTATAATTTA
* * *
882331 GGGTTTATGATTTATGATTTA
1 GGGTTTAGGGTTTATAATTTA
** *
882352 TAGTTTAGAGTTTA
1 GGGTTTAGGGTTTA
882366 GGGTGTAATC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
GGGTTTAGGGTTTATAATTTA
Found at i:882452 original size:7 final size:7
Alignment explanation
Indices: 882442--882488 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
882432 TCGGATTAAA
882442 GATTTAG
1 GATTTAG
882449 GATTTA-
1 GATTTAG
882455 GAGTTTA-
1 GA-TTTAG
*
882462 GATTTAA
1 GATTTAG
882469 GATTTAG
1 GATTTAG
882476 GATTTAG
1 GATTTAG
*
882483 GGTTTA
1 GATTTA
882489 ATCTAACATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.45
Consensus pattern (7 bp):
GATTTAG
Found at i:882473 original size:27 final size:27
Alignment explanation
Indices: 882435--882488 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
882425 CATATAATCG
882435 GATTAAAGATTTAGGATTTAGAGTTTA
1 GATTAAAGATTTAGGATTTAGAGTTTA
* *
882462 GATTTAAGATTTAGGATTTAGGGTTTA
1 GATTAAAGATTTAGGATTTAGAGTTTA
882489 ATCTAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (27 bp):
GATTAAAGATTTAGGATTTAGAGTTTA
Found at i:882515 original size:14 final size:16
Alignment explanation
Indices: 882486--882517 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
882476 GATTTAGGGT
882486 TTAATCTAACATGTGC
1 TTAATCTAACATGTGC
882502 TTAAT-TAA-ATGTGC
1 TTAATCTAACATGTGC
882516 TT
1 TT
882518 TTATTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTAATCTAACATGTGC
Found at i:887826 original size:191 final size:191
Alignment explanation
Indices: 887501--887872 Score: 480
Period size: 191 Copynumber: 1.9 Consensus size: 191
887491 ATGTTCGCAA
* * * * *
887501 TTGCAAATGAAAATTTCCTGTATAATGATATTTAGAAATCCAAAATTGACAGAACTTACCGAACA
1 TTGCAAATGAAAATTCCCTGAATAATAATATTTAGAAATCCAAAATTGACAGAAATTACCAAACA
* * * * * * *
887566 TATATAAAATGCAAAGTTTCCTCCCCATCGAGGCATTAACCTGAGCCATCTAAGACCCACTTAAA
66 GATATAAAATGCAAAGTTTCCACCACATCAAGGCATTAACCTGAACCAACTAACACCCACTTAAA
* * *
887631 AGAGAATGAGGACGAGACTAATCTAGAAAGGCCAATATTGCGTTCAACTCACAGAATATTT
131 AGAGAATGAGGAAGAGACTAATCTAGAAAGGCCAATATTACATTCAACTCACAGAATATTT
*
887692 TTGCAAATGAAAATTCCCTGAATAATAATATTTAGAAATCCAAAATTTACAGAAATTCACCAAAC
1 TTGCAAATGAAAATTCCCTGAATAATAATATTTAGAAATCCAAAATTGACAGAAATT-ACCAAAC
* *
887757 AGATA-ATAAATGC-AAGTTTCCACCACATCAAGGCATT-ATCTAGAACCAACTAACATCCACTT
65 AGATATA-AAATGCAAAGTTTCCACCACATCAAGGCATTAACCT-GAACCAACTAACACCCACTT
* * * * * *
887819 GAAAGAGACTGGGGAAGGGACTAATCTTGATAGGCCAATATTACATTCAACTCA
128 AAAAGAGAATGAGGAAGAGACTAATCTAGAAAGGCCAATATTACATTCAACTCA
887873 GGTTTTTTGT
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
190 3 0.02
191 135 0.88
192 16 0.10
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (191 bp):
TTGCAAATGAAAATTCCCTGAATAATAATATTTAGAAATCCAAAATTGACAGAAATTACCAAACA
GATATAAAATGCAAAGTTTCCACCACATCAAGGCATTAACCTGAACCAACTAACACCCACTTAAA
AGAGAATGAGGAAGAGACTAATCTAGAAAGGCCAATATTACATTCAACTCACAGAATATTT
Found at i:898311 original size:15 final size:15
Alignment explanation
Indices: 898291--898326 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
898281 TGGGAGTTTG
898291 CTTTCACTTGATTTA
1 CTTTCACTTGATTTA
898306 CTTTCACTTGATTTA
1 CTTTCACTTGATTTA
898321 CTTTCA
1 CTTTCA
898327 TTTCTAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (15 bp):
CTTTCACTTGATTTA
Found at i:903153 original size:2 final size:2
Alignment explanation
Indices: 903146--903176 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
903136 CTTTCAAAAT
903146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
903177 CCTATTGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:907361 original size:24 final size:24
Alignment explanation
Indices: 907334--907380 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
907324 CACCACAACT
907334 CGTATAAAT-TGCACCGAAGTGCCG
1 CGTA-AAATATGCACCGAAGTGCCG
* *
907358 CGTAGAATATGCACTGAAGTGCC
1 CGTAAAATATGCACCGAAGTGCC
907381 ACATAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (24 bp):
CGTAAAATATGCACCGAAGTGCCG
Found at i:907387 original size:24 final size:24
Alignment explanation
Indices: 907343--907435 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 24
907333 TCGTATAAAT
* *
907343 TGCACCGAAGTGCCGCGTAGAATA
1 TGCACCGAAGTGCCACATAGAATA
*
907367 TGCACTGAAGTGCCACATAGAAATA
1 TGCACCGAAGTGCCACATAG-AATA
*
907392 T-C-CCGAA-TGACCGCATAGAAATA
1 TGCACCGAAGTG-CCACATAG-AATA
907415 T-C-CCGAAG-GACCACATAGAAT
1 TGCACCGAAGTG-CCACATAGAAT
907436 TGTCTCGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.08
23 32 0.53
24 18 0.30
25 5 0.08
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (24 bp):
TGCACCGAAGTGCCACATAGAATA
Found at i:907444 original size:23 final size:23
Alignment explanation
Indices: 907379--907434 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
907369 CACTGAAGTG
*
907379 CCACATAGAAATATCCCGAATGA
1 CCACATAGAAATATCCCGAAGGA
*
907402 CCGCATAGAAATATCCCGAAGGA
1 CCACATAGAAATATCCCGAAGGA
907425 CCACATAGAA
1 CCACATAGAA
907435 TTGTCTCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (23 bp):
CCACATAGAAATATCCCGAAGGA
Found at i:909021 original size:16 final size:16
Alignment explanation
Indices: 909000--909032 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
908990 TGTTTCTCAG
909000 TCGGGAGGAATTTCGA
1 TCGGGAGGAATTTCGA
909016 TCGGGAGGAATTTCGA
1 TCGGGAGGAATTTCGA
909032 T
1 T
909033 GCAAATCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (16 bp):
TCGGGAGGAATTTCGA
Found at i:912009 original size:21 final size:21
Alignment explanation
Indices: 911977--912019 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
911967 TGCTTCTTTA
911977 ATTGAGAGTGCATCGATACAC
1 ATTGAGAGTGCATCGATACAC
*
911998 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATACAC
912019 A
1 A
912020 CAACTCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATACAC
Found at i:914948 original size:29 final size:30
Alignment explanation
Indices: 914887--914942 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
914877 ATTTCGGTAT
** *
914887 CTAAACTTTTCAAAGTTTATACTTTAGCTA
1 CTAAACTTTTCAAAACTTACACTTTAGCTA
914917 CTAAAC-TTTCAAAACTTACACTTTAG
1 CTAAACTTTTCAAAACTTACACTTTAG
914943 TCACTAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (30 bp):
CTAAACTTTTCAAAACTTACACTTTAGCTA
Found at i:922043 original size:10 final size:10
Alignment explanation
Indices: 922028--922052 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
922018 ATTTGCCATG
922028 AAATTTTCAA
1 AAATTTTCAA
922038 AAATTTTCAA
1 AAATTTTCAA
922048 AAATT
1 AAATT
922053 GCATTATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTTTCAA
Found at i:922416 original size:29 final size:31
Alignment explanation
Indices: 922356--922417 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
922346 TTTCGGTATT
* *
922356 TAAACTTTTCAAAAGTTTATACTTTAGCCAC
1 TAAACTTTTCAAAAGCTTAAACTTTAGCCAC
*
922387 TAAAC-TTTCAAAA-CTTAAACTTTAGTCAC
1 TAAACTTTTCAAAAGCTTAAACTTTAGCCAC
922416 TA
1 TA
922418 GACAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 8 0.29
31 5 0.18
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAACTTTTCAAAAGCTTAAACTTTAGCCAC
Found at i:925725 original size:27 final size:28
Alignment explanation
Indices: 925695--925758 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
925685 TAAAAATTAC
925695 AAAGTTTAAGAGAATATTGTGAT-AAAA
1 AAAGTTTAAGAGAATATTGTGATAAAAA
*
925722 AAAGTTTAAGAGAATATTGTGGTAAAAA
1 AAAGTTTAAGAGAATATTGTGATAAAAA
925750 AAAGTTTAA
1 AAAGTTTAA
925759 TAATTCAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (28 bp):
AAAGTTTAAGAGAATATTGTGATAAAAA
Found at i:927614 original size:2 final size:2
Alignment explanation
Indices: 927560--927600 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
927550 TAAAATCTTT
* * *
927560 TA TA TA GA TA TA TA TA TA TA TA TT TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
927601 TTGAAAGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:928923 original size:16 final size:16
Alignment explanation
Indices: 928899--928929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
928889 TGTAATTTAT
928899 AAGTGAGATAAATATC
1 AAGTGAGATAAATATC
*
928915 AAGTTAGATAAATAT
1 AAGTGAGATAAATAT
928930 TAGATAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.16, T:0.29
Consensus pattern (16 bp):
AAGTGAGATAAATATC
Found at i:940346 original size:155 final size:156
Alignment explanation
Indices: 940063--940374 Score: 608
Period size: 155 Copynumber: 2.0 Consensus size: 156
940053 ATGTTAATTT
940063 AAAATAATTTTAACCTAAAATATGGTCTTAAAAATCAATATAAATTTGTAATATTTTCGGTTGCA
1 AAAATAATTTTAACCTAAAATATGGTCTTAAAAATCAATATAAATTTGTAATATTTTCGGTTGCA
940128 ACCGAAAAGTTACATTGCGGGGCTTTAGGTCTTACAACAAAAAATATTATAGAAAATGTAACATT
66 ACCGAAAAGTTACATTGCGGGGCTTTAGGTCTTACAACAAAAAATATTATAGAAAATGTAACATT
*
940193 TTCGACTGTAACATGTCCAACTTTAA
131 TTCGACTATAACATGTCCAACTTTAA
940219 AAAATAATTTTAACCTAAAATATGGTCTT-AAAATCAATATAAATTTGTAATATTTTCGGTTGCA
1 AAAATAATTTTAACCTAAAATATGGTCTTAAAAATCAATATAAATTTGTAATATTTTCGGTTGCA
940283 ACCGAAAAGTTACATTGCGGGGCTTTAGGTCTTACAACAAAAAATATTATAGAAAATGTAACATT
66 ACCGAAAAGTTACATTGCGGGGCTTTAGGTCTTACAACAAAAAATATTATAGAAAATGTAACATT
940348 TTCGACTATAACATGTCCAACTTTAA
131 TTCGACTATAACATGTCCAACTTTAA
940374 A
1 A
940375 GGTTACTTCA
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
155 126 0.81
156 29 0.19
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (156 bp):
AAAATAATTTTAACCTAAAATATGGTCTTAAAAATCAATATAAATTTGTAATATTTTCGGTTGCA
ACCGAAAAGTTACATTGCGGGGCTTTAGGTCTTACAACAAAAAATATTATAGAAAATGTAACATT
TTCGACTATAACATGTCCAACTTTAA
Found at i:940531 original size:22 final size:23
Alignment explanation
Indices: 940488--940533 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
940478 CCTAAATCAT
940488 CGCTTCCCTTCTTCTTTTATCTC
1 CGCTTCCCTTCTTCTTTTATCTC
940511 CGCTTCCCTTCTTC-TTTATCTC
1 CGCTTCCCTTCTTCTTTTATCTC
940533 C
1 C
940534 TTTACATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.04, C:0.41, G:0.04, T:0.50
Consensus pattern (23 bp):
CGCTTCCCTTCTTCTTTTATCTC
Found at i:940829 original size:26 final size:28
Alignment explanation
Indices: 940800--940859 Score: 106
Period size: 26 Copynumber: 2.2 Consensus size: 28
940790 AACATCCTCA
940800 TAATGAATATTAT-ATATCGAATGAA-T
1 TAATGAATATTATAATATCGAATGAATT
940826 TAATGAATATTATAATATCGAATGAATT
1 TAATGAATATTATAATATCGAATGAATT
940854 TAATGA
1 TAATGA
940860 TAAATGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 13 0.41
27 12 0.38
28 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (28 bp):
TAATGAATATTATAATATCGAATGAATT
Found at i:942145 original size:50 final size:50
Alignment explanation
Indices: 942068--942190 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
942058 GAAGTAAAGC
* * *
942068 GCGCCCCCTGACCCGCGCTATACGCTGATTTGGCGCCACGT-GGGTATAGT
1 GCGCCCCCTGA-CCGCGCTATACGCTGACTGGGCGACACGTGGGGTATAGT
* ** **
942118 GTGCCCCCTGCACCGCGCTATTTGCTGACTGGGTTACACGTGGGGTATAGT
1 GCGCCCCCTG-ACCGCGCTATACGCTGACTGGGCGACACGTGGGGTATAGT
*
942169 GCGCCCCTTGAACCGCGCTATA
1 GCGCCCCCTG-ACCGCGCTATA
942191 TCTGTGTATC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 31 0.53
51 28 0.47
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.24
Consensus pattern (50 bp):
GCGCCCCCTGACCGCGCTATACGCTGACTGGGCGACACGTGGGGTATAGT
Found at i:951466 original size:112 final size:113
Alignment explanation
Indices: 951255--951608 Score: 595
Period size: 113 Copynumber: 3.1 Consensus size: 113
951245 AACTTTCAAC
* * *
951255 AAAGTATCGATATATTTTTATAAAAATTATCTATACTTTCAACATATCAGGTAAATTTTACTGGT
1 AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
951320 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
951368 AAAGTATCGAT-CCTTTTTATAAAACA-TATCGATACTTTCAACATATCAGGTAAATTTTACCGG
1 AAAGTATCGATACATTTTTATAAAA-AGTATCTATACTTTCAACATATCAGGTAAATTTTACCGG
* * *
951431 TTTTGTTATAATGAAACTGGTTTTGTCATACTTTTACTTGTTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
951480 AAAGTATCGATACATTTTTATAAAAAGGATCTATACTTTCAACATATCCGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
951545 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
951593 AAAGTATCGATACATT
1 AAAGTATCGATACATT
951609 ATAGGCGATA
Statistics
Matches: 224, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
112 104 0.46
113 120 0.54
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:951877 original size:23 final size:23
Alignment explanation
Indices: 951851--951900 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
951841 AACATATTTT
*
951851 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
951874 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
951897 TTAT
1 TTAT
951901 TGTTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:951924 original size:84 final size:85
Alignment explanation
Indices: 951836--952033 Score: 303
Period size: 82 Copynumber: 2.3 Consensus size: 85
951826 ACAAATTAAA
* * * *
951836 TAATTAACATATTTTTTATATAAGCGCTACCTATTACGTTATATAAGCGTTACCTAATATGTTAT
1 TAATTAACATATTTTTTATATAAGCGCTACCTATTACATTATATAACCGGTACATAATATGTTAT
951901 TGT-TTAATAATGTTTCCAG
66 TGTCTTAATAATGTTTCCAG
951920 TAATTAACATA--TTTTATATAAGCGCTACCTATTACATTATATAACCGGTACATAATATGTTAT
1 TAATTAACATATTTTTTATATAAGCGCTACCTATTACATTATATAACCGGTACATAATATGTTAT
*
951983 TGTGCTTAATAATGTTTTCAG
66 TGT-CTTAATAATGTTTCCAG
*
952004 TAATTAACCTATTTTATTATATAAGCGCTA
1 TAATTAACATATTTT-TTATATAAGCGCTA
952034 TCTCTGTGGA
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
82 51 0.50
84 36 0.35
86 2 0.02
87 14 0.14
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (85 bp):
TAATTAACATATTTTTTATATAAGCGCTACCTATTACATTATATAACCGGTACATAATATGTTAT
TGTCTTAATAATGTTTCCAG
Found at i:952564 original size:112 final size:112
Alignment explanation
Indices: 952352--952744 Score: 617
Period size: 112 Copynumber: 3.5 Consensus size: 112
952342 TAACTTTCAA
* * * *
952352 TAAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCATGTAAATTTTATCGG
1 TAAAGTATCGAT-CTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGG
* *
952417 TTTTGTCATAATGAAACTGATTTTATCATATTTTTACTTGTTATATTG
65 TTTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTG
* * *
952465 TAAAG-ATTCGATCCTTTTTATAAAAAGGATCGATGCTTTCAACATATCAGGTAAATTTTACCGG
1 TAAAGTA-TCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGG
* *
952529 TTTTGTCATAATGAAATTGGTTTTGTCATATTTTTACATGTTATATTG
65 TTTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTG
952577 TAAAGTATCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGGT
1 TAAAGTATCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGGT
* * *
952642 TTTGTCATAATGAAACTAATTTTGCCATATTTTTACCTGTTATATTG
66 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTG
* *
952689 TAAATTATCGATCTTTTTTATAAAAAGGATTGATACTTTCAACATATCAGGTAAAT
1 TAAAGTATCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAAT
952745 AACCAGTTAT
Statistics
Matches: 258, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
112 247 0.96
113 11 0.04
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (112 bp):
TAAAGTATCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGGT
TTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTG
Found at i:952905 original size:64 final size:64
Alignment explanation
Indices: 952832--952968 Score: 202
Period size: 64 Copynumber: 2.1 Consensus size: 64
952822 ATATATTACG
* * * *
952832 TTATATAAGCGCTACCTAATATGTTATTGTGATTGATAATGTATCTAGTAATTAACCTATTTTA
1 TTATATAAGCGATAACTAATATGTTATTGTGATTGATAATGTATCCAGTAATTAACATATTTTA
* * * *
952896 TTATATAAGCGATAACTAATGTGTTATTGTGTTTGATAATGTTTCCAGTGATTAACATATTTTA
1 TTATATAAGCGATAACTAATATGTTATTGTGATTGATAATGTATCCAGTAATTAACATATTTTA
952960 TTATATAAG
1 TTATATAAG
952969 TTTTACCTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (64 bp):
TTATATAAGCGATAACTAATATGTTATTGTGATTGATAATGTATCCAGTAATTAACATATTTTA
Found at i:956193 original size:18 final size:18
Alignment explanation
Indices: 956170--956204 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
956160 GATACATTGC
956170 ATGGGGGTATCGATACCT
1 ATGGGGGTATCGATACCT
956188 ATGGGGGTATCGATACC
1 ATGGGGGTATCGATACC
956205 AATCGAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
ATGGGGGTATCGATACCT
Found at i:958995 original size:21 final size:23
Alignment explanation
Indices: 958925--959044 Score: 103
Period size: 21 Copynumber: 5.5 Consensus size: 23
958915 ACCTCGTGGA
*
958925 GGGTATCGATACC-A-TC-AGGG
1 GGGTATCGATACCTATTCAAAGG
* *
958945 GGGTATCGATACCCA-TCCAAGG
1 GGGTATCGATACCTATTCAAAGG
* * *
958967 ATGGTATCAATACCTATT-GAA-G
1 -GGGTATCGATACCTATTCAAAGG
958989 GGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACCTATTCAAAGG
* *
959012 GGGTATCGATACC-AGTCTAA-G
1 GGGTATCGATACCTATTCAAAGG
959033 GGGTATCGATAC
1 GGGTATCGATAC
959045 TATATGCACA
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.15
21 31 0.37
22 11 0.13
23 28 0.33
24 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (23 bp):
GGGTATCGATACCTATTCAAAGG
Found at i:958998 original size:44 final size:44
Alignment explanation
Indices: 958944--959044 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
958934 TACCATCAGG
* *
958944 GGGGTATCGATACCCA-TCCAAGGATGGTATCAATACCTA-T-TGAA
1 GGGGTATCGATACCCATTCAAAGG-GGGTATCAATACC-AGTCT-AA
* *
958988 GGGGTATCGATACCTATTCAAAGGGGGTATCGATACCAGTCTAA
1 GGGGTATCGATACCCATTCAAAGGGGGTATCAATACCAGTCTAA
959032 GGGGTATCGATAC
1 GGGGTATCGATAC
959045 TATATGCACA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.02
44 42 0.84
45 7 0.14
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (44 bp):
GGGGTATCGATACCCATTCAAAGGGGGTATCAATACCAGTCTAA
Found at i:962829 original size:22 final size:21
Alignment explanation
Indices: 962787--962826 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
962777 GAGATTATTT
*
962787 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
962808 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
962827 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:963017 original size:18 final size:18
Alignment explanation
Indices: 962994--963029 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
962984 TTCTTCATCG
962994 CTCCATGTAGCCACATGA
1 CTCCATGTAGCCACATGA
963012 CTCCATGTAGCCACATGA
1 CTCCATGTAGCCACATGA
963030 GCCTTGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
CTCCATGTAGCCACATGA
Found at i:970533 original size:49 final size:49
Alignment explanation
Indices: 970477--970570 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
970467 TGCACGAATT
* * *
970477 AAGTAACCACAATAATAAAAGTATTGTTGTTACTCTTTGAGATCTAATC
1 AAGTAACCACAATAATAAAAGAATTGTAGTTACTCCTTGAGATCTAATC
970526 AAGTAACCACAATAATAAAAGAATTGTAGTTACTCCTTGAGATCT
1 AAGTAACCACAATAATAAAAGAATTGTAGTTACTCCTTGAGATCT
970571 CGGATTTGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (49 bp):
AAGTAACCACAATAATAAAAGAATTGTAGTTACTCCTTGAGATCTAATC
Found at i:970885 original size:30 final size:28
Alignment explanation
Indices: 970826--970902 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 28
970816 TTTTTAATTC
*
970826 AAATATTTAAAATATTTTTAGTCAAAAT
1 AAATATCTAAAATATTTTTAGTCAAAAT
* *
970854 AAATATCTAAAATTACTTTTTGGTCAGAAT
1 AAATATCTAAAA-TA-TTTTTAGTCAAAAT
*
970884 AAGTA-CATAAAATATTTTT
1 AAATATC-TAAAATATTTTT
970903 TGTCGAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 16 0.38
29 5 0.12
30 21 0.50
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (28 bp):
AAATATCTAAAATATTTTTAGTCAAAAT
Found at i:970913 original size:28 final size:26
Alignment explanation
Indices: 970833--970927 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 26
970823 TTCAAATATT
* *
970833 TAAAATATTTTTAGTCAAAATAAATATC
1 TAAAATATTTTTAGTC-AGATAAGTA-C
*
970861 TAAAATTACTTTTTGGTCAGAATAAGTAC
1 TAAAA-TA-TTTTTAGTCAG-ATAAGTAC
*
970890 ATAAAATATTTTTTGTCGAGATAAGTAC
1 -TAAAATATTTTTAGTC-AGATAAGTAC
*
970918 CAAAAGTATT
1 TAAAA-TATT
970928 CAACTTTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
27 4 0.07
28 25 0.45
29 8 0.14
30 19 0.34
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (26 bp):
TAAAATATTTTTAGTCAGATAAGTAC
Found at i:974841 original size:32 final size:32
Alignment explanation
Indices: 974800--974878 Score: 149
Period size: 32 Copynumber: 2.5 Consensus size: 32
974790 TATACGAGGT
974800 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
*
974832 GAGGTCGCCATGCAAACGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
974864 GAGGTCGCCATGCAG
1 GAGGTCGCCATGCAG
974879 TCTGGGCGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.34, T:0.10
Consensus pattern (32 bp):
GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
Found at i:974969 original size:29 final size:29
Alignment explanation
Indices: 974865--974959 Score: 154
Period size: 29 Copynumber: 3.3 Consensus size: 29
974855 GCCAATGGAG
* **
974865 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
974894 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
974923 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
974952 AAGTCGCC
1 AGGTCGCC
974960 CCGGCGTCCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:975059 original size:50 final size:50
Alignment explanation
Indices: 974986--975102 Score: 197
Period size: 50 Copynumber: 2.4 Consensus size: 50
974976 CCCGAGACCA
974986 TGCATG-C-ACATGCA-GCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
*
975033 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
975083 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
975103 TGTGATCCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
47 6 0.09
48 1 0.02
49 14 0.22
50 44 0.68
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.22
Consensus pattern (50 bp):
TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
Found at i:975334 original size:16 final size:18
Alignment explanation
Indices: 975313--975351 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
975303 GGAGATAAGG
*
975313 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
975329 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
975347 TAAAT
1 TAAAT
975352 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:975519 original size:46 final size:48
Alignment explanation
Indices: 975456--975547 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 48
975446 TTATATAGTT
975456 AAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATATAA
*
975501 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
975548 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 8 0.20
46 15 0.37
47 3 0.07
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:975630 original size:34 final size:33
Alignment explanation
Indices: 975586--975660 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
975576 TTAGTTAGTA
975586 AGTTTATTAG-TAG-TATA-TTATAAAAAAAAT
1 AGTTTATTAGTTAGTTATAGTTATAAAAAAAAT
* *
975616 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAT
1 AGTTTATTAGTTAGTTATAGTTATAAAAAAAAT
*
975649 ATTTTATTAGTT
1 AGTTTATTAGTT
975661 GTTTAAGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.26
31 3 0.08
32 3 0.08
33 23 0.59
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (33 bp):
AGTTTATTAGTTAGTTATAGTTATAAAAAAAAT
Found at i:975737 original size:16 final size:16
Alignment explanation
Indices: 975705--975751 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
975695 TTTAAAAAGT
*
975705 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
975721 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
975737 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
975752 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:975746 original size:15 final size:14
Alignment explanation
Indices: 975726--975756 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
975716 GTTTATTAGT
975726 TTATTATATTATAAG
1 TTATTATATTA-AAG
975741 TTATTATATTAAAG
1 TTATTATATTAAAG
975755 TT
1 TT
975757 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:977924 original size:17 final size:17
Alignment explanation
Indices: 977902--977934 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
977892 CAATGATGTT
*
977902 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
977919 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
977935 GTATTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:977953 original size:21 final size:21
Alignment explanation
Indices: 977929--977972 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
977919 TAGTATCAAA
* *
977929 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
977950 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
977971 TA
1 TA
977973 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:977971 original size:11 final size:11
Alignment explanation
Indices: 977939--977972 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
977929 TAATTAGTAT
977939 TAAATCATTAG
1 TAAATCATTAG
*
977950 T-AATAATTAG
1 TAAATCATTAG
977960 TAAATCATTAG
1 TAAATCATTAG
977971 TA
1 TA
977973 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:977980 original size:14 final size:14
Alignment explanation
Indices: 977901--977983 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
977891 ACAATGATGT
977901 TTAGTATCAAATCA
1 TTAGTATCAAATCA
*
977915 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATCA
*
977932 TTAGTATTAAATCA
1 TTAGTATCAAATCA
*
977946 TTAG--T--AATAA
1 TTAGTATCAAATCA
977956 TTAG--T-AAATCA
1 TTAGTATCAAATCA
977967 TTAGTATCAAATCA
1 TTAGTATCAAATCA
977981 TTA
1 TTA
977984 AATATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.16
11 8 0.14
12 1 0.02
13 1 0.02
14 24 0.42
15 1 0.02
16 1 0.02
17 12 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATCA
Found at i:978106 original size:14 final size:14
Alignment explanation
Indices: 978087--978126 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
978077 TAGTAATAAT
978087 TATTAAATCATTAG
1 TATTAAATCATTAG
*
978101 TATTAAATCATTAT
1 TATTAAATCATTAG
*
978115 TA-TAAATAATTA
1 TATTAAATCATTA
978127 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:978176 original size:12 final size:12
Alignment explanation
Indices: 978069--978819 Score: 112
Period size: 12 Copynumber: 60.9 Consensus size: 12
978059 TTAGTATTCT
978069 ATAATTATTAGTA
1 ATAATTATTA-TA
978082 ATAATTATTA-A
1 ATAATTATTATA
* *
978093 ATCATTAGTATTAA
1 ATAATTATTA-T-A
*
978107 ATCATTATTATAA
1 ATAATTATTAT-A
*
978120 ATAATTACTA-A
1 ATAATTATTATA
**
978131 ATAA-TAACATA
1 ATAATTATTATA
978142 ATAATTATTATAAA
1 ATAATTATTAT--A
*
978156 ATCATTATTATA
1 ATAATTATTATA
* *
978168 ATGATTATTATC
1 ATAATTATTATA
*
978180 A-AATCATTACTAA
1 ATAATTATTA-T-A
* * *
978193 ATCATCA-AATCA
1 ATAATTATTAT-A
* *
978205 TTAAATATT-TAA
1 ATAATTATTAT-A
*
978217 ATCATTATTA-A
1 ATAATTATTATA
* *
978228 ATCATTTTTATA
1 ATAATTATTATA
*
978240 ATGATTATTATTAA
1 ATAATTATTA-T-A
*
978254 ATCATTATTATA
1 ATAATTATTATA
*
978266 ATGATTATTATCAA
1 ATAATTATTAT--A
* *
978280 ATCATTACTATA
1 ATAATTATTATA
* *
978292 ATGATTATTATC
1 ATAATTATTATA
*
978304 A-AATCATTACTAA
1 ATAATTATTA-T-A
* * *
978317 ATCATCA-AATCA
1 ATAATTATTAT-A
* *
978329 TTAAATATT-TAA
1 ATAATTATTAT-A
*
978341 ATCATTATTA-A
1 ATAATTATTATA
* *
978352 ATCATTTTTATA
1 ATAATTATTATA
*
978364 ATGATTATTACTAA
1 ATAATTATTA-T-A
*
978378 ATCATTATTATA
1 ATAATTATTATA
*
978390 ATGATTATTACTAA
1 ATAATTATTA-T-A
* *
978404 ATCATTATTATG
1 ATAATTATTATA
* *
978416 ATTATTATCA-A
1 ATAATTATTATA
* *
978427 ATCATTACTATA
1 ATAATTATTATA
* *
978439 ATGATTATTATC
1 ATAATTATTATA
*
978451 A-AATCATTACTAA
1 ATAATTATTA-T-A
* * *
978464 ATCATCA-AATCA
1 ATAATTATTAT-A
* *
978476 TTAAATATT-TAA
1 ATAATTATTAT-A
*
978488 ATCATTATTA-A
1 ATAATTATTATA
*
978499 ATCATTATTATA
1 ATAATTATTATA
*
978511 ATGATTATTACTAA
1 ATAATTATTA-T-A
*
978525 ATCATTATTATA
1 ATAATTATTATA
*
978537 ATGATTATTATCAA
1 ATAATTATTAT--A
* *
978551 ATCATTACTATA
1 ATAATTATTATA
* *
978563 ATGATTATTATC
1 ATAATTATTATA
*
978575 A-AATCATTACTAA
1 ATAATTATTA-T-A
* * *
978588 ATCATCA-AATCA
1 ATAATTATTAT-A
* *
978600 TTAAATATT-TAA
1 ATAATTATTAT-A
*
978612 ATCATTATTA-A
1 ATAATTATTATA
*
978623 ATCATTATTATA
1 ATAATTATTATA
*
978635 ATGATTATTACTAA
1 ATAATTATTA-T-A
*
978649 ATCATTATTATA
1 ATAATTATTATA
*
978661 ATGATTATTATCAA
1 ATAATTATTAT--A
* *
978675 ATCATTACTATA
1 ATAATTATTATA
* *
978687 ATGATT-TTATC
1 ATAATTATTATA
*
978698 A-AATCATTACTAA
1 ATAATTATTA-T-A
* * *
978711 ATCATCA-AATCA
1 ATAATTATTAT-A
* *
978723 TTAAATATT-TAA
1 ATAATTATTAT-A
*
978735 ATCATTATTA-A
1 ATAATTATTATA
* *
978746 ATCATTTTTATA
1 ATAATTATTATA
*
978758 ATGATTATTACTAA
1 ATAATTATTA-T-A
*
978772 ATCATTATTATA
1 ATAATTATTATA
*
978784 ATGATTATTATCA
1 ATAATTATTAT-A
* *
978797 ATCATTACTATA
1 ATAATTATTATA
*
978809 ATGATTATTAT
1 ATAATTATTAT
978820 CAAATCATTA
Statistics
Matches: 542, Mismatches: 138, Indels: 117
0.68 0.17 0.15
Matches are distributed among these distances:
10 5 0.01
11 109 0.20
12 244 0.45
13 53 0.10
14 131 0.24
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:978183 original size:26 final size:26
Alignment explanation
Indices: 978085--978829 Score: 554
Period size: 26 Copynumber: 30.2 Consensus size: 26
978075 ATTAGTAATA
* * *
978085 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978110 ATTATTATAA--ATAATTA-CTAAAT-
1 ATTATTATAATGATTATTATC-AAATC
* ** * *
978133 AATAACATAATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
978159 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
978185 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
978208 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
978231 ATTTTTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
978257 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978283 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
978309 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
978332 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978355 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
978381 ATTATTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
978407 ATTA-T-T-ATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978430 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
978456 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
978479 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
978502 ATTATTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
978528 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978554 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
978580 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
978603 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
978626 ATTATTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
978652 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978678 ATTACTATAATGATT-TTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
978703 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
978726 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
978749 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
978775 ATTATTATAATGATTATTATC-AATC
1 ATTATTATAATGATTATTATCAAATC
*
978800 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
978826 ATTA
1 ATTA
978830 CTAAATCATC
Statistics
Matches: 577, Mismatches: 94, Indels: 97
0.75 0.12 0.13
Matches are distributed among these distances:
21 20 0.03
22 10 0.02
23 98 0.17
24 47 0.08
25 84 0.15
26 315 0.55
27 3 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:978299 original size:147 final size:145
Alignment explanation
Indices: 978085--978586 Score: 499
Period size: 147 Copynumber: 3.4 Consensus size: 145
978075 ATTAGTAATA
* * * * * *
978085 ATTATTA-AATCATTAGTATTAAATCATTATTATAA--ATAATTA-CTAAATAATAAC-ATAATA
1 ATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATG
* * * * * *
978145 ATTATTATAAAATCATTATTATAATGAT-TATTATCAAATCATTACTAAATCATCAAATCATTAA
65 ATTATTA-CAAATCATTACTA-AATCATAAATCATTAAAT-ATT--TAAATCAT-AAATCATTAA
978209 ATATTTAAATCATTATTAAATC
124 ATATTTAAATCATTATTAAATC
*
978231 ATTTTTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA
1 ATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA
978296 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT---T-ATTAAATCAT
66 TTATTA-CAAATCATTACTAAATCAT-AAATCATTAAATATTTAAATCATAAATCATTAAAT-A-
*
978357 TTTTATAATGATTATTACTAAATC
127 -TTTA-AATCATTA-T--TAAATC
*
978381 ATTATTATAATGATTATTACTAAATCATTA-T-T-ATGATTATTATCAAATCATTACTATAATGA
1 ATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA
* * * * * *
978443 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTATT
66 TTATTA-CAAATCATTACTAAATCAT-AAATCATTAAATATTTAAATCATAAATCATTAAATATT
* *
978508 ATAATGATTATTACTAAATC
129 -TAA--ATCATTATTAAATC
* *
978528 ATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA
1 ATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTA
978587 AATCATCAAA
Statistics
Matches: 309, Mismatches: 23, Indels: 44
0.82 0.06 0.12
Matches are distributed among these distances:
143 7 0.02
144 2 0.01
146 10 0.03
147 147 0.48
148 14 0.05
149 23 0.07
150 94 0.30
151 12 0.04
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (145 bp):
ATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA
TTATTACAAATCATTACTAAATCATAAATCATTAAATATTTAAATCATAAATCATTAAATATTTA
AATCATTATTAAATC
Found at i:978309 original size:124 final size:121
Alignment explanation
Indices: 978105--978887 Score: 938
Period size: 124 Copynumber: 6.4 Consensus size: 121
978095 CATTAGTATT
* * * * ** *
978105 AAATCATTAT-TATAAATAATTACTAAAT-AATAACATAATAATTATTA-TAAAATCATTATTAT
1 AAATCATTATATTTAAATCATTATTAAATCATTATTATAATGATTATTACT-AAATCATTATTAT
* * * *
978167 AATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAAT-ATT-TAAATCATTATT
65 AATGATTATTATCAAATCATTACTATAATGAT--AATTATCAAATCATTATAAATC---ATC
* *
978226 AAATCATT-T-TTATAATGATTATTATTAAATCATTATTATAATGATTATTA-TCAAATCATTAC
1 AAATCATTATATT-TAA--ATCATTATTAAATCATTATTATAATGATTATTACT-AAATCATTAT
* * * *
978288 TATAATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAAT-ATT-TAAATCATTATT
62 TATAATGATTATTATCAAATCATTACTATAATGAT--AATTATCAAATCATTATAAATC---ATC
* *
978350 AAATCATT-T-TTATAATGATTATTACTAAATCATTATTATAATGATTATTACTAAATCATTA-T
1 AAATCATTATATT-TAA--ATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATT
*
978412 -T-ATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
63 ATAATGATTATTATCAAATCATTACTATAATGATAATTATCAAATCATTA-TAAATCATC
978470 AAATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTA
1 AAATCATT--ATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTA
*
978535 TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
64 TAATGATTATTATCAAATCATTACTATAATGATAATTATCAAATCATTA-TAAATCATC
978594 AAATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTA
1 AAATCATT--ATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTA
*
978659 TAATGATTATTATCAAATCATTACTATAATGAT-TTTATCAAATCATTACTAAATCATC
64 TAATGATTATTATCAAATCATTACTATAATGATAATTATCAAATCATTA-TAAATCATC
*
978717 AAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTA
1 AAATCATT--ATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTA
*
978782 TAATGATTATTATC-AATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
64 TAATGATTATTATCAAATCATTACTATAATGATAATTATCAAATCATTA-TAAATCATC
*
978840 AAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTA
1 AAATCATT--ATATTTAAATCATTATTAAATCATTATTATAATGATTA
978888 ATAAATATAG
Statistics
Matches: 625, Mismatches: 20, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
120 20 0.03
121 80 0.13
122 25 0.04
123 197 0.32
124 302 0.48
125 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (121 bp):
AAATCATTATATTTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATA
ATGATTATTATCAAATCATTACTATAATGATAATTATCAAATCATTATAAATCATC
Found at i:978422 original size:271 final size:270
Alignment explanation
Indices: 978246--978832 Score: 218
Period size: 271 Copynumber: 2.3 Consensus size: 270
978236 TATAATGATT
*
978246 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTAT-AAATCATTATTATAATGATTATTATCAAATCAT
* * * * *
978311 TACTA-AATCATCAAATCATTAAAT-ATT--TAAATCAT----T-ATTAAATCATTTTTATAATG
65 TACTATAATGAT--TATTATCAAATCATTACTAAATCATCAAATCATTAAAT-A--TTTA-AATC
978367 ATTATTACTAAATCATTATTATAATGATTATTACTAAATCATTA-T-T-ATGATTATTA-TCAAA
124 ATTA-T--TAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTACT-AAA
* * * *
978428 TCATTACTATAATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAAT-ATT--TAAA
185 TCATTA-T-T-ATGATTATTATCAAATCATTACTATAATGAT--TATTATCAAATCATTACTAAA
* * *
978489 TCATTATTAAATCATT--AT-TATAATGATT
245 TC---ATCAAATCATTAAATATTTAA--ATC
* *
978517 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTAT-AAATCATTATTATAATGATTATTATCAAATCAT
* * * * * *
978582 TACTA-AATCATCAAATCATTAAAT-ATT--TAAATCATTATTAAATCATT--AT-TATAATGAT
65 TACTATAATGAT--TATTATCAAATCATTACTAAATC---ATCAAATCATTAAATATTTAA--AT
* * *
978640 TATTACTAAATCATTATTATAATGATTATTA-TCAAATCATTACTATAATGATT-TTA-TCAAAT
123 CATTATTAAATCATTATTATAATGATTATTACT-AAATCATTATTATAATGATTATTACT-AAAT
* * *
978702 CATTACTA--A--ATCATCAAATC---A-T-TAA--A-TATT-T-AAATCATTATTAAATCAT--
186 CATTATTATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCA
* * * *
978751 --T--TT-TATA-AT-GATT
251 AATCATTAAATATTTAAATC
* * *
978764 ATTACTAAATCATTATTATAATGATTATTATCAATCATTACTATAATGATTATTATCAAATCATT
1 ATTATTAAATCATTATTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATT
978829 ACTA
66 ACTA
978833 AATCATCAAA
Statistics
Matches: 286, Mismatches: 10, Indels: 65
0.79 0.03 0.18
Matches are distributed among these distances:
246 37 0.13
247 34 0.12
249 2 0.01
250 4 0.01
251 1 0.00
255 6 0.02
256 4 0.01
257 2 0.01
258 6 0.02
260 1 0.00
262 3 0.01
263 1 0.00
266 10 0.03
268 1 0.00
270 2 0.01
271 132 0.46
272 2 0.01
273 18 0.06
274 14 0.05
277 2 0.01
278 1 0.00
279 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (270 bp):
ATTATTAAATCATTATTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATT
ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
AATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTACTAAATCATTATTATG
ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAAATC
Found at i:981775 original size:26 final size:24
Alignment explanation
Indices: 981715--981775 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
981705 TACTAATATT
*
981715 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
981739 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
981766 ATTTAATAAT
1 A-TTAATAAT
981776 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:982598 original size:21 final size:21
Alignment explanation
Indices: 982565--982613 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
982555 TATATAATAT
*
982565 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
982586 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
982607 ATTAACT
1 A-TAACT
982614 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:983079 original size:35 final size:35
Alignment explanation
Indices: 983039--983106 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
983029 TGGATGCAAC
*
983039 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
*
983074 GCATGCATGAGTGCTACAGTTAAAGCTGGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCG
983107 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
Found at i:983163 original size:12 final size:12
Alignment explanation
Indices: 983146--983170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
983136 TCCATGGCGA
983146 CCTACCACCTAC
1 CCTACCACCTAC
983158 CCTACCACCTAC
1 CCTACCACCTAC
983170 C
1 C
983171 ATGTCGTCGG
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:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:983503 original size:29 final size:29
Alignment explanation
Indices: 983461--983574 Score: 203
Period size: 29 Copynumber: 3.9 Consensus size: 29
983451 AAATAATGAT
*
983461 GGACGCCGGGCGTGCATGGCGTCCT-TATA
1 GGACGCCGGGCGTGCATGGCGACCTATA-A
983490 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
983519 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
983548 GGACGCCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
983575 GTTGCCACTG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 81 0.98
30 2 0.02
ACGTcount: A:0.18, C:0.28, G:0.39, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:992859 original size:16 final size:16
Alignment explanation
Indices: 992812--992859 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
992802 AAGAATGTGA
992812 ACAAGGAAAAAAAATAC
1 ACAAGGAAAAAAAA-AC
* * *
992829 ACTACGAAAATAAAAC
1 ACAAGGAAAAAAAAAC
*
992845 AGAAGGAAAAAAAAA
1 ACAAGGAAAAAAAAA
992860 ATACTGGAAG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.71, C:0.10, G:0.12, T:0.06
Consensus pattern (16 bp):
ACAAGGAAAAAAAAAC
Found at i:993270 original size:133 final size:137
Alignment explanation
Indices: 993114--993384 Score: 505
Period size: 133 Copynumber: 2.0 Consensus size: 137
993104 TGTACCGTAT
993114 AGCAACAGAAAAAAATATCGTGGTCAGCAGGTTATACCATTTTTTTACCAGAAAGAGCGGTAAAA
1 AGCAACAGAAAAAAATATCGTGGTCAGCAGGTTATACCATTTTTTTACCAGAAAGAGCGGTAAAA
993179 -TTTCCAGCCCTCAAGAAACAAACAGGTTTCACAAACATCT-AAA-ATATAAATATCAACT-AAA
66 TTTTCCAGCCCTCAAGAAACAAACAGGTTTCACAAACATCTAAAATATATAAATATCAACTAAAA
993240 ATGATAA
131 ATGATAA
*
993247 AGCAACAGAAAAAATTATCGTGGTCAGCAGGTTATACCATTTTTTTACCAGAAAGAGCGGTAAAA
1 AGCAACAGAAAAAAATATCGTGGTCAGCAGGTTATACCATTTTTTTACCAGAAAGAGCGGTAAAA
993312 TTTTCCAGCCCTCAAGAAACAAACAGGTTTCACAAACATCTAAAATATATAAATATCAACTAAAA
66 TTTTCCAGCCCTCAAGAAACAAACAGGTTTCACAAACATCTAAAATATATAAATATCAACTAAAA
993377 ATGATAA
131 ATGATAA
993384 A
1 A
993385 TGATAGGTGC
Statistics
Matches: 133, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
133 64 0.48
134 40 0.30
135 3 0.02
136 15 0.11
137 11 0.08
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (137 bp):
AGCAACAGAAAAAAATATCGTGGTCAGCAGGTTATACCATTTTTTTACCAGAAAGAGCGGTAAAA
TTTTCCAGCCCTCAAGAAACAAACAGGTTTCACAAACATCTAAAATATATAAATATCAACTAAAA
ATGATAA
Found at i:1001633 original size:9 final size:9
Alignment explanation
Indices: 1001586--1001633 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
1001576 TTTATTTGAT
1001586 TTTAATTAA
1 TTTAATTAA
* *
1001595 ATTAATTAG
1 TTTAATTAA
*
1001604 TTGAATTAAAA
1 TTTAATT--AA
1001615 TTTAATTAA
1 TTTAATTAA
1001624 TTTAATTAA
1 TTTAATTAA
1001633 T
1 T
1001634 CGGTTAAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 24 0.77
11 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (9 bp):
TTTAATTAA
Found at i:1002339 original size:9 final size:8
Alignment explanation
Indices: 1002291--1002365 Score: 62
Period size: 8 Copynumber: 9.0 Consensus size: 8
1002281 TAAACAAATT
1002291 AAATAAAA
1 AAATAAAA
*
1002299 AATTAAAAGA
1 AAAT-AAA-A
1002309 AAATAAAA
1 AAATAAAA
*
1002317 AAATCATAA
1 AAAT-AAAA
1002326 AAATAAAA
1 AAATAAAA
1002334 ACAATAAAA
1 A-AATAAAA
*
1002343 TAAT-AAA
1 AAATAAAA
* *
1002350 TAATAAAC
1 AAATAAAA
1002358 AAATAAAA
1 AAATAAAA
1002366 TAAAGCAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.13
8 23 0.43
9 20 0.37
10 4 0.07
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:1002364 original size:23 final size:23
Alignment explanation
Indices: 1002279--1002368 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 23
1002269 AAAAGGATTA
* *
1002279 AATAAACAAATTAAATAAAAAATT
1 AATAAACAAATAAAATAATAAA-T
* *
1002303 AA-AAGA-AAATAAAAAAATCATAAA
1 AATAA-ACAAATAAAATAAT-A-AAT
*
1002327 AATAAAAACAATAAAATAATAAAT
1 AATAAACA-AATAAAATAATAAAT
1002351 AATAAACAAATAAAATAA
1 AATAAACAAATAAAATAA
1002369 AGCAAGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
23 21 0.40
24 16 0.30
25 6 0.11
26 10 0.19
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (23 bp):
AATAAACAAATAAAATAATAAAT
Found at i:1002380 original size:14 final size:13
Alignment explanation
Indices: 1002278--1002380 Score: 60
Period size: 13 Copynumber: 8.3 Consensus size: 13
1002268 TAAAAGGATT
*
1002278 AAATAAACAAATT
1 AAATAAACAAATA
*
1002291 AAATAAA-AAATT
1 AAATAAACAAATA
*
1002303 AAA-AGA-AAATA
1 AAATAAACAAATA
*
1002314 AAA-AAATCATA-A
1 AAATAAA-CAAATA
*
1002326 AAATAAAAACAATA
1 AAATAAACA-AATA
*
1002340 AAAT-AATAAAT-
1 AAATAAACAAATA
1002351 -AATAAACAAATA
1 AAATAAACAAATA
*
1002363 AAATAAAGCAAGTA
1 AAATAAA-CAAATA
1002377 AAAT
1 AAAT
1002381 GCATAAACAA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
10 3 0.04
11 17 0.24
12 16 0.22
13 22 0.31
14 14 0.19
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAACAAATA
Found at i:1002724 original size:19 final size:18
Alignment explanation
Indices: 1002693--1002728 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1002683 AATTAAAATA
*
1002693 TAAATTAAGTAAAAAAAC
1 TAAATTAAATAAAAAAAC
1002711 TAAATTAAAATAAAAAAA
1 TAAATT-AAATAAAAAAA
1002729 ATTGGAGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAATTAAATAAAAAAAC
Found at i:1003791 original size:2 final size:2
Alignment explanation
Indices: 1003730--1003780 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1003720 ATAAACAATA
*
1003730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1003772 AT AT AT AT A
1 AT AT AT AT A
1003781 AAGTTATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1007202 original size:22 final size:22
Alignment explanation
Indices: 1007177--1007235 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
1007167 ATTCTTAAGG
1007177 TTATTTTTAAAACAATATATAA
1 TTATTTTTAAAACAATATATAA
* *
1007199 TTATTTGTT-ATACAATATATCA
1 TTATTT-TTAAAACAATATATAA
1007221 TTA-TTTTAATAACAA
1 TTATTTTTAA-AACAA
1007236 CAGTTAACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 2 0.06
21 3 0.10
22 24 0.77
23 2 0.06
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
TTATTTTTAAAACAATATATAA
Found at i:1017820 original size:41 final size:41
Alignment explanation
Indices: 1017770--1017867 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
1017760 ATAACGAAGT
* * *
1017770 TTTACAATTATAATAATAAATTAAATATATAGTTAAATATA
1 TTTACAATTATAATAATAAATTAAACATATAATAAAATATA
*
1017811 TTTATAATTATAATAATAAATTAAACATATAATAAAATATA
1 TTTACAATTATAATAATAAATTAAACATATAATAAAATATA
*
1017852 TTTAGAATTATAATAA
1 TTTACAATTATAATAA
1017868 ATATTATCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (41 bp):
TTTACAATTATAATAATAAATTAAACATATAATAAAATATA
Found at i:1017883 original size:41 final size:40
Alignment explanation
Indices: 1017770--1017884 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
1017760 ATAACGAAGT
* *
1017770 TTTACAATTATAATAATAAATTAAATATATAGTTAAATATA
1 TTTACAATTATAATAATAAATTAAAT-TATAATAAAATATA
* *
1017811 TTTATAATTATAATAATAAATTAAACATATAATAAAATATA
1 TTTACAATTATAATAATAAATTAAA-TTATAATAAAATATA
* *
1017852 TTTAGAATTATAATAA-ATATTATCAATTATAAT
1 TTTACAATTATAATAATAAATTA--AATTATAAT
1017885 TATTGATGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 5 0.08
41 57 0.89
42 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (40 bp):
TTTACAATTATAATAATAAATTAAATTATAATAAAATATA
Found at i:1020468 original size:2 final size:2
Alignment explanation
Indices: 1020418--1020456 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1020408 ATTGATTCTT
1020418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1020457 TTCAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1020473 original size:14 final size:14
Alignment explanation
Indices: 1020419--1020473 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
1020409 TTGATTCTTT
*
1020419 ATATATATATAT-A
1 ATATATATATTTCA
*
1020432 TATATATATATAT-A
1 -ATATATATATTTCA
1020446 TATATATATATTTCA
1 -ATATATATATTTCA
*
1020461 ATATATATTTTTC
1 ATATATATATTTC
1020474 CAGTCAATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 37 0.97
15 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATATATTTCA
Found at i:1023678 original size:19 final size:19
Alignment explanation
Indices: 1023654--1023692 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1023644 AAAGTATGTA
1023654 TAATTTAAGAACAAACTGC
1 TAATTTAAGAACAAACTGC
1023673 TAATTTAAGAACAAACTGC
1 TAATTTAAGAACAAACTGC
1023692 T
1 T
1023693 CTTAGATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (19 bp):
TAATTTAAGAACAAACTGC
Found at i:1024485 original size:101 final size:101
Alignment explanation
Indices: 1024310--1024565 Score: 458
Period size: 101 Copynumber: 2.5 Consensus size: 101
1024300 GATTTTGATT
*
1024310 TTATTCCTTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACTGAGAATAGAGT
1 TTATTCCCTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACTGAGAATAGAGT
* * *
1024375 AATCTTCTTACTAAGTCAATTATGTTTAAAATCATG
66 AATCTTCTTACCAAGTCAATTATATTTAAAATCATA
1024411 TTATTCCCTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACTGAGAATAGAGT
1 TTATTCCCTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACTGAGAATAGAGT
1024476 AATCTTCTTACCAAGTCAATTATATTTAAAATCATA
66 AATCTTCTTACCAAGTCAATTATATTTAAAATCATA
* *
1024512 ATATTCCCTTAAATTTTGATTGAGTTGACGTTATTGGTTAATCGAGTGTTAACT
1 TTATTCCCTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACT
1024566 TAATTAAGAA
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 149 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (101 bp):
TTATTCCCTTAAATTTTGATTGAGTTGGCGTTATTGGTTAATCGAGTGTTAACTGAGAATAGAGT
AATCTTCTTACCAAGTCAATTATATTTAAAATCATA
Found at i:1027490 original size:3 final size:3
Alignment explanation
Indices: 1027477--1027537 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
1027467 TGGTCTGCAT
* *
1027477 TAA TAAA TAA TAA TAT TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1027523 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
1027538 CGGTTCAGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1028133 original size:134 final size:131
Alignment explanation
Indices: 1027710--1028132 Score: 513
Period size: 134 Copynumber: 3.2 Consensus size: 131
1027700 ATCGAGAAAT
* * *
1027710 ATTGACTCATTCCACTGTTCTACAGGGAAGATTAAATCAAGGCAGACTTGTTCCACTGTTACTCA
1 ATTGATTCATTCCACT-TTCTA-A-GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCA
* * * * * * *
1027775 GAGAATACCAAATCTTGAAAGAGATGGACATGTTGCGCTTCTTCTTGAGGGAAAATCAGATCTAG
63 GGGAATATCAAATCTTGAAAGAGGTGGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
1027840 GGAC
128 GGAC
* * * *
1027844 GTTGATTCATTCCATTCTTACTCAGGAAAGATTGAATAGAGGCAGACTTGTTCCACTGTTACTCA
1 ATTGATTCATTCCA--CTTTCTAAGG-AAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCA
* * * * * *
1027909 GGGAATATCAAATCTTGCAAGAGGGGGATCTGTTTCACTTCTTCCTGAGGGAAAATTAGATCTGG
63 GGGAATATCAAATCTTGAAAGAGGTGGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
1027974 GGAC
128 GGAC
* * * *
1027978 GTTGATTCATTCCACGTTTCTTAAGGAAGATTGAATCGAGCCAGATTTGTTCCATTGTTACTCAG
1 ATTGATTCATTCCAC-TTTC-TAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAG
* * *
1028043 GGAATATCAAATCTTTGAAAGAGGTGGATTTGTTCCACTTCTTCTTGAGAGAAAATCAGATATGG
64 GGAATATCAAATC-TTGAAAGAGGTGGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
1028108 GGAC
128 GGAC
1028112 ATTGATTCATTCCACTATTCT
1 ATTGATTCATTCCACT-TTCT
1028133 TTAAAGAAAA
Statistics
Matches: 248, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
132 1 0.00
133 55 0.22
134 187 0.75
135 3 0.01
136 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (131 bp):
ATTGATTCATTCCACTTTCTAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGG
AATATCAAATCTTGAAAGAGGTGGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGA
C
Found at i:1028182 original size:134 final size:133
Alignment explanation
Indices: 1027772--1028190 Score: 340
Period size: 134 Copynumber: 3.1 Consensus size: 133
1027762 CCACTGTTAC
* ** * * * *
1027772 TCAGAGAATACCAAATC-TTGAAAGAGATGGA-CATGTTGCGCTTCTTCTTGAGGGAAAATCAGA
1 TCAGAGAATATCAAATCTTTGAAAGAGGGGGATC-TGTTCCACTTCTTCCTGAGAGAAAATCAGA
* * * * * *
1027835 TCTAGGGACGTTGATTCATTCCA---TTCTTACTCAGGAAAGATTGAATAGAGGCAGACTT-GTT
65 TATGGGGACATTGATTCATTCCACGTTTCTTA---AAGAAA-ATTGAATCGAGCCAGA-TTCGTT
* *
1027896 CCACTGTTA
125 CCATTATTA
* * * * *
1027905 CTCAGGGAATATCAAATC-TTGCAAGAGGGGGATCTGTTTCACTTCTTCCTGAGGGAAAATTAGA
1 -TCAGAGAATATCAAATCTTTGAAAGAGGGGGATCTGTTCCACTTCTTCCTGAGAGAAAATCAGA
* * * * *
1027969 TCTGGGGACGTTGATTCATTCCACGTTTCTTAAGGAAGATTGAATCGAGCCAGATTTGTTCCATT
65 TATGGGGACATTGATTCATTCCACGTTTCTTAAAGAAAATTGAATCGAGCCAGATTCGTTCCATT
*
1028034 GTTA
130 ATTA
* * * *
1028038 CTCAGGGAATATCAAATCTTTGAAAGAGGTGGATTTGTTCCACTTCTTCTTGAGAGAAAATCAGA
1 -TCAGAGAATATCAAATCTTTGAAAGAGGGGGATCTGTTCCACTTCTTCCTGAGAGAAAATCAGA
* *
1028103 TATGGGGACATTGATTCATTCCAC-TATTCTTTAAAGAAAATTGGATCGAGTTC-GATTCGCTTC
65 TATGGGGACATTGATTCATTCCACGT-TTC-TTAAAGAAAATTGAATCGAG-CCAGATTCG-TTC
1028166 TC-TTATCT-
126 -CATTAT-TA
1028174 TC-GAGAATATCAAATCT
1 TCAGAGAATATCAAATCT
1028191 GCAAATTAAA
Statistics
Matches: 243, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
132 2 0.01
133 44 0.18
134 157 0.65
135 25 0.10
136 7 0.03
137 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (133 bp):
TCAGAGAATATCAAATCTTTGAAAGAGGGGGATCTGTTCCACTTCTTCCTGAGAGAAAATCAGAT
ATGGGGACATTGATTCATTCCACGTTTCTTAAAGAAAATTGAATCGAGCCAGATTCGTTCCATTA
TTA
Found at i:1028868 original size:230 final size:230
Alignment explanation
Indices: 1028455--1028868 Score: 557
Period size: 230 Copynumber: 1.8 Consensus size: 230
1028445 TCATTTTCCA
* * * *
1028455 GAAAATCATGTGAAAACATCATGCACGAATGATTTATGTATGACCCAAATAACTTATTATCTTAC
1 GAAAAACATGTGAAAACATCACGCACGAATGATTTATGGATGACCCAAATAACTTATGATCTTAC
* * * * * *
1028520 TCGAGAGGCTTATAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGGCTG
66 TCGAAAGACTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGGCTG
* *
1028585 AAGAACTTACCAAATTTTAGAATAGTCTACTAGGTAATAAACTTTTTTTACTTTTTTAAAAAAAA
131 AAGAACTTACCAAATTTGAGAATAGTCTACTAGGTAATAAACTTTTCTTACTTTTTTAAAAAAAA
1028650 TCAATTTTCAGATTTAACTAAGAAACTTTTTTTTT
196 TCAATTTTCAGATTTAACTAAGAAACTTTTTTTTT
* * * *
1028685 GAAAAACATGTGAAAACATCCCGCCCGAA-GGTCTTATGGATGACCCGAAA-GACTTATGATCTT
1 GAAAAACATGTGAAAACATCACGCACGAATGAT-TTATGGATGACCC-AAATAACTTATGATCTT
* * * *
1028748 GCTCGAAAGACTTACAGATTACCCGAAGGGTTTAAACA-CAATGCTCGAAAGACTTACTGATGGT
64 ACTCGAAAGACTTACAGATGACCCGAAGGATTTAAACATC-ATGCTCGAAAGACTTACTGATGGG
* * *
1028812 CTGAAGGACTTACCAACTTTG-GAAATAGTTTACTAGGTAATAAACTTTTCTTACTTT
128 CTGAAGAACTTACCAAATTTGAG-AATAGTCTACTAGGTAATAAACTTTTCTTACTTT
1028869 CCAACAATTT
Statistics
Matches: 157, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
229 4 0.03
230 150 0.96
231 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (230 bp):
GAAAAACATGTGAAAACATCACGCACGAATGATTTATGGATGACCCAAATAACTTATGATCTTAC
TCGAAAGACTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGGCTG
AAGAACTTACCAAATTTGAGAATAGTCTACTAGGTAATAAACTTTTCTTACTTTTTTAAAAAAAA
TCAATTTTCAGATTTAACTAAGAAACTTTTTTTTT
Found at i:1034189 original size:64 final size:64
Alignment explanation
Indices: 1034056--1034216 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 64
1034046 ATTGTTCAAG
* * * * *
1034056 GTGTATCGATGCACATGAAGTGTATCGATACACTCCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGTAGTGTATCGATGCACGCCCTTAAAATAAAAACATCGAATGCCATCA
* * * ** *
1034120 GTGTATCAATGCACAAGTAGTGCATCGATGCACGCCCTTAAAATACAAACATCGAATGGGATTTA
1 GTGTATCGATGCACAAGTAGTGTATCGATGCACGCCCTTAAAATAAAAACATCGAATGCCA-TCA
1034185 -TGTATCGATG-A-ATAGATAGTGTATCGATGCAC
1 GTGTATCGATGCACA-AG-TAGTGTATCGATGCAC
1034217 CCGTCAAGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 75 0.93
65 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGTATCGATGCACGCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:1034893 original size:23 final size:23
Alignment explanation
Indices: 1034860--1034919 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1034850 AATCTTATAT
*
1034860 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
1034883 GGCACTTCGGTGCAATTCTATGT
1 GGCACTTCGGTGCAATTCTACGC
*
1034906 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
1034920 TTTATACGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Done.