Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 37
Found at i:7131143 original size:18 final size:18
Alignment explanation
Indices: 7131118--7131152 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7131108 AAGTTGCTTC
7131118 AAAAAAGAAAAA-AAAAA
1 AAAAAAGAAAAAGAAAAA
7131135 AAAACAAGAAAAAGAAAA
1 AAAA-AAGAAAAAGAAAA
7131153 GCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAA
Found at i:7131293 original size:6 final size:6
Alignment explanation
Indices: 7131282--7131307 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7131272 ACCATCACAT
7131282 ACGCAC ACGCAC ACGCAC ACGCAC AC
1 ACGCAC ACGCAC ACGCAC ACGCAC AC
7131308 ACATATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
ACGCAC
Found at i:7139586 original size:29 final size:28
Alignment explanation
Indices: 7139544--7139622 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 28
7139534 TGGTGATCGG
7139544 TATATTTACCGATCTAACACCGGTCAGAC
1 TATATTT-CCGATCTAACACCGGTCAGAC
*
7139573 TATATTTCTCGATCTAACACCGGTTAGAC
1 TATATTTC-CGATCTAACACCGGTCAGAC
*
7139602 TATATTTCACGATATAACACC
1 TATATTTC-CGATCTAACACC
7139623 CTTTGTAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 1 0.02
29 45 0.98
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
TATATTTCCGATCTAACACCGGTCAGAC
Found at i:7143414 original size:35 final size:34
Alignment explanation
Indices: 7143329--7143415 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
7143319 AAAATAAATT
* *
7143329 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
7143363 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
7143401 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
7143416 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:7148103 original size:15 final size:16
Alignment explanation
Indices: 7148075--7148104 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7148065 CGAGGAGAGT
7148075 CATCCCATCACTCTAC
1 CATCCCATCACTCTAC
7148091 CATCCCA-CACTCTA
1 CATCCCATCACTCTA
7148105 GATGAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (16 bp):
CATCCCATCACTCTAC
Found at i:7158163 original size:9 final size:10
Alignment explanation
Indices: 7158144--7158168 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7158134 TTATAACTTA
7158144 TTTTTCTTTT
1 TTTTTCTTTT
7158154 TTTTTCTTTT
1 TTTTTCTTTT
7158164 TTTTT
1 TTTTT
7158169 ATGTGGGGTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:7162521 original size:20 final size:20
Alignment explanation
Indices: 7162498--7162540 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7162488 AATCCACCAC
*
7162498 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
7162518 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
7162538 ATG
1 ATG
7162541 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:7163589 original size:3 final size:3
Alignment explanation
Indices: 7163581--7163671 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
7163571 ATGGTCATTA
7163581 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
7163629 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7163672 TTTATCATAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:7167798 original size:24 final size:24
Alignment explanation
Indices: 7167771--7167824 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7167761 AATATTTTAC
*
7167771 TTGGTATGATTCCTATTAACTAAA
1 TTGGTATGATTCCTATCAACTAAA
* *
7167795 TTGGTATGATTCTTATCAGCTAAA
1 TTGGTATGATTCCTATCAACTAAA
7167819 TGTGGT
1 T-TGGT
7167825 TAAGCAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (24 bp):
TTGGTATGATTCCTATCAACTAAA
Found at i:7177132 original size:2 final size:2
Alignment explanation
Indices: 7177125--7177166 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7177115 AATGCCAATG
7177125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7177167 CAATAAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7181904 original size:19 final size:19
Alignment explanation
Indices: 7181877--7181917 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7181867 CTCGACTTGA
* *
7181877 ACATTGAATGTGAAAACTG
1 ACATGGAATATGAAAACTG
*
7181896 ACATGGAATATGAAAATTG
1 ACATGGAATATGAAAACTG
7181915 ACA
1 ACA
7181918 ATAAACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (19 bp):
ACATGGAATATGAAAACTG
Found at i:7183405 original size:2 final size:2
Alignment explanation
Indices: 7183398--7183445 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7183388 CGTTACACGT
7183398 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7183440 GA GA GA
1 GA GA GA
7183446 TGAAGGTGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7185065 original size:7 final size:7
Alignment explanation
Indices: 7185053--7185092 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
7185043 CATATAGGGG
7185053 TCACCCT
1 TCACCCT
7185060 TCACCCT
1 TCACCCT
7185067 TCACCCT
1 TCACCCT
*
7185074 TCACACT
1 TCACCCT
*
7185081 TCACACT
1 TCACCCT
7185088 TCACC
1 TCACC
7185093 ATCATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.53, G:0.00, T:0.28
Consensus pattern (7 bp):
TCACCCT
Found at i:7189516 original size:20 final size:20
Alignment explanation
Indices: 7189491--7189603 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
7189481 TTTTCCCAAT
7189491 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
7189511 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
7189532 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
7189552 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
7189572 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
7189593 TCGCAATGCGA
1 TCGCAATGCGA
7189604 TACTGACTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 47 0.60
21 31 0.40
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:7189616 original size:41 final size:41
Alignment explanation
Indices: 7189589--7189720 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 41
7189579 GCGAATTGGG
* * *
7189589 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * * *
7189630 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
*** * * * *
7189670 ACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
*
7189711 ATAATCGCAA
1 AAAATCGCAA
7189721 TGCGATTTTC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.44
41 40 0.56
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:7189617 original size:20 final size:20
Alignment explanation
Indices: 7189592--7189706 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
7189582 AATTGGGAAA
*
7189592 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
7189612 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
7189633 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
7189653 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
7189673 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
7189693 TTCGCAACGCGATA
1 ATCGCAACGCGATA
7189707 ATACATAATC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:7189922 original size:22 final size:22
Alignment explanation
Indices: 7189894--7189937 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7189884 CACTCTCTCA
7189894 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
7189916 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
7189938 TATCTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:7190225 original size:20 final size:20
Alignment explanation
Indices: 7190171--7190244 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
7190161 AAATCGCAAC
*
7190171 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
** *
7190190 GCGATAGTCGA-ATTCGCGTT
1 GCGATTTTC-ATTTTCGCGTT
*
7190210 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
7190230 GCGATTTTCATTTTC
1 GCGATTTTCATTTTC
7190245 AGAAACTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.16
20 37 0.82
21 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.46
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:7191585 original size:18 final size:18
Alignment explanation
Indices: 7191564--7191608 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7191554 TCCACTTCGG
*
7191564 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
7191582 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
7191600 GAGCCATCA
1 GAGCCATCA
7191609 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:7192144 original size:19 final size:20
Alignment explanation
Indices: 7192090--7192156 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
7192080 TAGTTTACTT
* *
7192090 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
7192110 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
7192130 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
7192149 TCGCAACG
1 TCGCAACG
7192157 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:7192183 original size:18 final size:19
Alignment explanation
Indices: 7192159--7192208 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 19
7192149 TCGCAACGAC
7192159 AAAATCGCAATGCAAAATG
1 AAAATCGCAATGCAAAATG
*
7192178 -AAATCGCAATGCGAAATG
1 AAAATCGCAATGCAAAATG
7192196 AAAATCGCAATGC
1 AAAATCGCAATGC
7192209 GATTTGTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (19 bp):
AAAATCGCAATGCAAAATG
Found at i:7192202 original size:19 final size:19
Alignment explanation
Indices: 7192129--7192210 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
7192119 GGAAATGGCT
7192129 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7192148 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
7192162 ATCGCAATGCAAAATG-AA
1 ATCGCAATGCGAAATGAAA
7192180 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7192199 ATCGCAATGCGA
1 ATCGCAATGCGA
7192211 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 1 0.02
17 2 0.04
18 18 0.34
19 21 0.40
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7192280 original size:19 final size:19
Alignment explanation
Indices: 7192217--7192339 Score: 87
Period size: 20 Copynumber: 6.7 Consensus size: 19
7192207 GCGATTTGTG
*
7192217 TTTCGCATTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
*
7192235 TTTCGCGTGGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
7192251 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
7192268 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
7192287 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
*
7192307 TTTCGCGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
7192326 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
7192340 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
14 7 0.08
15 3 0.04
16 2 0.02
17 2 0.02
18 14 0.17
19 26 0.31
20 29 0.35
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:7194210 original size:14 final size:14
Alignment explanation
Indices: 7194191--7194226 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7194181 ATTGTTTAAT
7194191 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
7194205 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
7194219 TGATTTGT
1 TGATTTGT
7194227 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7194352 original size:14 final size:17
Alignment explanation
Indices: 7194343--7194405 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 17
7194333 ATCGCAACGA
7194343 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
7194362 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
7194381 GAAAATCGCAA-CG-A-
1 GAAAATCGCAAGCGAAT
7194395 GAAAATCGCAA
1 GAAAATCGCAA
7194406 TGCCTAACTG
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
17 2 0.05
19 30 0.68
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (17 bp):
GAAAATCGCAAGCGAAT
Found at i:7194398 original size:19 final size:19
Alignment explanation
Indices: 7194343--7194391 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
7194333 ATCGCAACGA
7194343 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7194362 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7194381 GAAAATCGCAA
1 GAAAATCGCAA
7194392 CGAGAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:7195494 original size:24 final size:24
Alignment explanation
Indices: 7195441--7195487 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7195431 GTATTCGAAA
* *
7195441 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
7195465 TTTGATATTGGTCAATACACGGA
1 TTTGATATTGGTCAATACACGGA
7195488 TATTGATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:7198016 original size:33 final size:33
Alignment explanation
Indices: 7197974--7198100 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
7197964 GGAAATTACT
*
7197974 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
7198007 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
7198039 TTTCGCAATGCCAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7198073 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7198101 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7198058 original size:66 final size:66
Alignment explanation
Indices: 7197975--7198107 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
7197965 GAAATTACTA
* *
7197975 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCCAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
7198040 T
66 T
* *
7198041 TCGCAATGCCAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCCAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
7198106 T
66 T
7198107 T
1 T
7198108 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATGCCAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:7198122 original size:19 final size:20
Alignment explanation
Indices: 7198100--7198142 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7198090 AAATCGCAAC
7198100 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
7198119 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
7198139 GCGA
1 GCGA
7198143 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:7198127 original size:14 final size:14
Alignment explanation
Indices: 7198128--7198161 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7198118 TGCGATTTTC
7198128 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
7198142 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
7198156 ATTTTC
1 ATTTTC
7198162 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:7198302 original size:14 final size:14
Alignment explanation
Indices: 7198283--7198319 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7198273 CATCAATTAA
7198283 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7198297 ACAAATCACCTTTT
1 ACAAATCAACTTTT
7198311 ACAAATCAA
1 ACAAATCAA
7198320 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7199743 original size:21 final size:21
Alignment explanation
Indices: 7199677--7199743 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7199667 GTGAATCGGG
*
7199677 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
7199697 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
7199719 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
7199740 CTCT
1 CTCT
7199744 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:7199762 original size:42 final size:41
Alignment explanation
Indices: 7199677--7199799 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
7199667 GTGAATCGGG
* * * * *
7199677 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
7199719 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
7199761 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
7199800 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:7201883 original size:33 final size:33
Alignment explanation
Indices: 7201826--7201924 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
7201816 ATGAGATAAT
*
7201826 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
7201860 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
7201893 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
7201925 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:7201918 original size:19 final size:19
Alignment explanation
Indices: 7201801--7201966 Score: 118
Period size: 19 Copynumber: 9.1 Consensus size: 19
7201791 TCTTTTGGTT
* *
7201801 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGC
*
7201820 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
7201840 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
7201858 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
7201874 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
7201892 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7201907 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
7201927 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
7201946 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
7201965 GA
1 GA
7201967 TTTTTGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 44 0.37
20 44 0.37
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:7201998 original size:19 final size:19
Alignment explanation
Indices: 7201962--7202028 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
7201952 AAAATCGCAA
*
7201962 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
7201981 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
7202000 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
7202020 TGCGATTTT
1 TGCGATTTT
7202029 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:7202569 original size:20 final size:20
Alignment explanation
Indices: 7202544--7202596 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
7202534 GCGCTATGTA
7202544 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
7202564 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
7202584 TATCTCGTTGCGA
1 AATCGCGTTGCGA
7202597 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:7202657 original size:41 final size:41
Alignment explanation
Indices: 7202565--7202659 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
7202555 GAAAGTCAGA
* * * * ** *
7202565 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
7202606 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
7202648 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
7202660 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:7213001 original size:17 final size:17
Alignment explanation
Indices: 7212962--7213003 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7212952 TATAAATTTT
7212962 ATAAAATTAAAAATATA
1 ATAAAATTAAAAATATA
*
7212979 AAAAAATTAATAAA-ATA
1 ATAAAATTAA-AAATATA
*
7212996 GTAAAATT
1 ATAAAATT
7213004 TTATTTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAATTAAAAATATA
Found at i:7217419 original size:6 final size:6
Alignment explanation
Indices: 7217408--7217435 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7217398 GAAGAGAGAC
7217408 AGGGAA AGGGAA AGGGAA AGGGAA AGGG
1 AGGGAA AGGGAA AGGGAA AGGGAA AGGG
7217436 GTGAAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
AGGGAA
Found at i:7220306 original size:15 final size:15
Alignment explanation
Indices: 7220283--7220317 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7220273 AACTGCTGCT
*
7220283 TCTCAGCTCATTGGA
1 TCTCCGCTCATTGGA
*
7220298 TCTCCGCTCATTGGT
1 TCTCCGCTCATTGGA
7220313 TCTCC
1 TCTCC
7220318 TTTTCCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.17, T:0.37
Consensus pattern (15 bp):
TCTCCGCTCATTGGA
Found at i:7222551 original size:804 final size:800
Alignment explanation
Indices: 7221007--7222609 Score: 3143
Period size: 804 Copynumber: 2.0 Consensus size: 800
7220997 TACTGGCATG
7221007 GACTTGCAGCAAGCCCTTGAGCTTCAGAATACAAGGTTGATGGATCTGCAACTCCTCGATCTTAA
1 GACTTGCAGCAAGCCCTTGAGCTTCAGAATACAAGGTTGATGGATCTGCAACTCCTCGATCTTAA
7221072 GAAGCTTCAACATCAGAGGGGCTTTTCTAGTGGAAGTCCCATTCCATCACCTGCTCGGTCACCGA
66 GAAGCTTCAACATCAGAGGGGCTTTTCTAGTGGAAGTCCCATTCCATCACCTGCTCGGTCACCGA
7221137 TCCTTTACAGTCGGTCTCTTGTACTCATTTTCAGAGCAACCAAGAAGCTCTACAGGGTACCCTCC
131 TCCTTTACAGTCGGTCTCTTGTACTCATTTTCAGAGCAACCAAGAAGCTCTACAGGGTACCCTCC
7221202 ATTCAGTTACCGCAATCGCTAATAATCTAGTATTATCATCTGCTTAGGTCATATGAACATCTTTT
196 ATTCAGTTACCGCAATCGCTAATAATCTAGTATTATCATCTGCTTAGGTCATATGAACATCTTTT
7221267 TATACTGGAATGAGTAACCGATTCACAATCCTCCATCACAGAGAATTGTTCTAGCCCAATGCCAG
261 TATACTGGAATGAGTAACCGATTCACAATCCTCCATCACAGAGAATTGTTCTAGCCCAATGCCAG
7221332 CTATAGTGGTCACTGCTGCCGAGAAACAAACAACCAGCACTGCTGGAAAAAAATCGGTCGGTACT
326 CTATAGTGGTCACTGCTGCCGAGAAACAAACAACCAGCACTGCTGGAAAAAAATCGGTCGGTACT
7221397 GAAGAGAGTGGTAGTGATAAGGAGGGTACTGATTGTGAAGAAGTGATTTACCGGCAAGGTAATCA
391 GAAGAGAGTGGTAGTGATAAGGAGGGTACTGATTGTGAAGAAGTGATTTACCGGCAAGGTAATCA
7221462 TGTAGTTCATCTTCATGTTCTTTAAGGTTTGACATCCACTCCAGGGATTGTGAAAGATAGCATCT
456 TGTAGTTCATCTTCATGTTCTTTAAGGTTTGACATCCACTCCAGGGATTGTGAAAGATAGCATCT
7221527 TTCTTAATTAATTGCAGCGTGGAGCACAGCCTTCCTGATAGTCCTTTTGTGTCTCCTGCGAAAGC
521 TTCTTAATTAATTGCAGCGTGGAGCACAGCCTTCCTGATAGTCCTTTTGTGTCTCCTGCGAAAGC
7221592 CTCCAGGGATAACTCGGCTTTCCCCAATGCCGATATAGAGAAGGATGGTTCAGTCTCAGATTCTT
586 CTCCAGGGATAACTCGGCTTTCCCCAATGCCGATATAGAGAAGGATGGTTCAGTCTCAGATTCTT
*
7221657 CTTCCGCTAACAATAATTGGATTCATTCAACCTTAATTCCTGCAAATAATGCATTAGACAAAGCA
651 CTTCCGCTAACAATAATTAGATTCATTCAACCTTAATTCCTGCAAATAATGCATTAGACAAAGCA
7221722 TCCATAAACTCCTTCAAGTGCCAAATCCGCAGGTAGGGTCATTTGTTAGTTGCTGAACACCTCTG
716 TCCATAAACTCCTTCAAGTGCCAAATCCGCAGGTAGGGTCATTTGTTAGTTGCTGAACACCTCTG
7221787 ATCGGTTTAATAACACTATT
781 ATCGGTTTAATAACACTATT
7221807 GACTTGCAGCAAGCCCTTGAGCTTCAGAATACAAGGTTGATGGATCTGCAACTCCTCGATCTTAA
1 GACTTGCAGCAAGCCCTTGAGCTTCAGAATACAAGGTTGATGGATCTGCAACTCCTCGATCTTAA
7221872 GAAGCTTCAACATCAGAGGGGCTTTTCTAGTGGAAGTCCCATTCCATCACCTGCTCGGTCACCGA
66 GAAGCTTCAACATCAGAGGGGCTTTTCTAGTGGAAGTCCCATTCCATCACCTGCTCGGTCACCGA
7221937 TCCTTTACAGTCGGTCTCTTGTACTTACTCATTTTCAGAGCAACCAAGAAGCTCTACAGGGTACC
131 TCCTTTACAGTCGGTCTCTTG----TACTCATTTTCAGAGCAACCAAGAAGCTCTACAGGGTACC
7222002 CTCCATTCAGTTACCGCAATCGCTAATAATCTAGTATTATCATCTGCTTAGGTCATATGAACATC
192 CTCCATTCAGTTACCGCAATCGCTAATAATCTAGTATTATCATCTGCTTAGGTCATATGAACATC
*
7222067 TTTTTATACTGGAATGAGTAACCGATTCACAATCCTCCATCGCAGAGAATTGTTCTAGCCCAATG
257 TTTTTATACTGGAATGAGTAACCGATTCACAATCCTCCATCACAGAGAATTGTTCTAGCCCAATG
7222132 CCAGCTATAGTGGTCACTGCTGCCGAGAAACAAACAACCAGCACTGCTGGAAAAAAATCGGTCGG
322 CCAGCTATAGTGGTCACTGCTGCCGAGAAACAAACAACCAGCACTGCTGGAAAAAAATCGGTCGG
7222197 TACTGAAGAGAGTGGTAGTGATAAGGAGGGTACTGATTGTGAAGAAGTGATTTACCGGCAAGGTA
387 TACTGAAGAGAGTGGTAGTGATAAGGAGGGTACTGATTGTGAAGAAGTGATTTACCGGCAAGGTA
7222262 ATCATGTAGTTCATCTTCATGTTCTTTAAGGTTTGACATCCACTCCAGGGATTGTGAAAGATAGC
452 ATCATGTAGTTCATCTTCATGTTCTTTAAGGTTTGACATCCACTCCAGGGATTGTGAAAGATAGC
7222327 ATCTTTCTTAATTAATTGCAGCGTGGAGCACAGCCTTCCTGATAGTCCTTTTGTGTCTCCTGCGA
517 ATCTTTCTTAATTAATTGCAGCGTGGAGCACAGCCTTCCTGATAGTCCTTTTGTGTCTCCTGCGA
*
7222392 AAGCCTCCAGGGATAACTCGGCTTTCCCCAATGCCGATATAGAGAAGGATGGTTCAGTCTCAGCT
582 AAGCCTCCAGGGATAACTCGGCTTTCCCCAATGCCGATATAGAGAAGGATGGTTCAGTCTCAGAT
7222457 TCTTCTTCCGCTAACAATAATTAGATTCATTCAACCTTAATTCCTGCAAATAATGCATTAGACAA
647 TCTTCTTCCGCTAACAATAATTAGATTCATTCAACCTTAATTCCTGCAAATAATGCATTAGACAA
7222522 AGCATCCATAAACTCCTTCAAGTGCCAAATCCGCAGGTAGGGTCATTTGTTAGTTGCTGAACACC
712 AGCATCCATAAACTCCTTCAAGTGCCAAATCCGCAGGTAGGGTCATTTGTTAGTTGCTGAACACC
7222587 TCTGATCGGTTTAATAACACTAT
777 TCTGATCGGTTTAATAACACTAT
7222610 CATTACACTT
Statistics
Matches: 796, Mismatches: 3, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
800 151 0.19
804 645 0.81
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (800 bp):
GACTTGCAGCAAGCCCTTGAGCTTCAGAATACAAGGTTGATGGATCTGCAACTCCTCGATCTTAA
GAAGCTTCAACATCAGAGGGGCTTTTCTAGTGGAAGTCCCATTCCATCACCTGCTCGGTCACCGA
TCCTTTACAGTCGGTCTCTTGTACTCATTTTCAGAGCAACCAAGAAGCTCTACAGGGTACCCTCC
ATTCAGTTACCGCAATCGCTAATAATCTAGTATTATCATCTGCTTAGGTCATATGAACATCTTTT
TATACTGGAATGAGTAACCGATTCACAATCCTCCATCACAGAGAATTGTTCTAGCCCAATGCCAG
CTATAGTGGTCACTGCTGCCGAGAAACAAACAACCAGCACTGCTGGAAAAAAATCGGTCGGTACT
GAAGAGAGTGGTAGTGATAAGGAGGGTACTGATTGTGAAGAAGTGATTTACCGGCAAGGTAATCA
TGTAGTTCATCTTCATGTTCTTTAAGGTTTGACATCCACTCCAGGGATTGTGAAAGATAGCATCT
TTCTTAATTAATTGCAGCGTGGAGCACAGCCTTCCTGATAGTCCTTTTGTGTCTCCTGCGAAAGC
CTCCAGGGATAACTCGGCTTTCCCCAATGCCGATATAGAGAAGGATGGTTCAGTCTCAGATTCTT
CTTCCGCTAACAATAATTAGATTCATTCAACCTTAATTCCTGCAAATAATGCATTAGACAAAGCA
TCCATAAACTCCTTCAAGTGCCAAATCCGCAGGTAGGGTCATTTGTTAGTTGCTGAACACCTCTG
ATCGGTTTAATAACACTATT
Found at i:7235774 original size:31 final size:31
Alignment explanation
Indices: 7235738--7235800 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
7235728 GGACCTATGT
*
7235738 AACTGTTCATATGTTCCGAAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
7235769 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
7235800 A
1 A
7235801 CCCTCGACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:7238176 original size:31 final size:31
Alignment explanation
Indices: 7238141--7238202 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
7238131 TCTTTTATTT
*
7238141 TTCAGGGTTGGATTTGACATCGATCAAGATG
1 TTCAGGGTTGGATTCGACATCGATCAAGATG
7238172 TTCAGGGTTGGATTCGACATCGATCAAGATG
1 TTCAGGGTTGGATTCGACATCGATCAAGATG
7238203 GCGTTTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (31 bp):
TTCAGGGTTGGATTCGACATCGATCAAGATG
Found at i:7261630 original size:29 final size:29
Alignment explanation
Indices: 7261594--7261652 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
7261584 ACTATAATAT
*
7261594 AATGTCATATCATCGTTGAAA-AAAATAAA
1 AATGTCATATCATCATT-AAACAAAATAAA
7261623 AATGTCATATCATCATTAAACAAAATAAA
1 AATGTCATATCATCATTAAACAAAATAAA
7261652 A
1 A
7261653 TAAAAGGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
AATGTCATATCATCATTAAACAAAATAAA
Found at i:7268253 original size:139 final size:139
Alignment explanation
Indices: 7267960--7268464 Score: 778
Period size: 139 Copynumber: 3.6 Consensus size: 139
7267950 ACTATTCACA
* * * * * * *
7267960 TGAAGGCGCATTCTCGGGGGGGTGCCTTCGATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 TGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
7268025 TTATGTCACTCATGTCCCTC-GGGGTACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTG
66 TTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTG
7268089 GCAAAGTGG
131 GCAAAGTGG
* * * *
7268098 TGAAAACGCGTTCCCGGTGACGCACCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
7268163 TTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACATATTATTTCTAAGGGGACTTG
66 TTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTG
7268228 GCAAAGTGG
131 GCAAAGTGG
* * * * *
7268237 TGAAAGCGCGTTCCCGGGGGGGCGTCTTCAATTATTTTGTCAGATAATATATTATCATTGTCCTA
1 TGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
7268302 TTATGTCACTCATGTCCCTCAGGGGCACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTG
66 TTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTG
7268367 GCAAAGTGG
131 GCAAAGTGG
* * *
7268376 TGAAAGTGCATTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
7268441 TTATGTCACTCATGTCCCCCGGGG
66 TTATGTCACTCATGTCCCCCGGGG
7268465 AACTATAGAT
Statistics
Matches: 331, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
138 73 0.22
139 258 0.78
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (139 bp):
TGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTG
GCAAAGTGG
Found at i:7268647 original size:22 final size:23
Alignment explanation
Indices: 7268605--7268649 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
7268595 ATGTGAAGTT
*
7268605 TGAATAAATTGGATTAAATGTTA
1 TGAATAAATTGGAATAAATGTTA
7268628 TGAATAAATT-GAATAAATGTTA
1 TGAATAAATTGGAATAAATGTTA
7268650 AGTGATCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAATAAATTGGAATAAATGTTA
Found at i:7268726 original size:63 final size:63
Alignment explanation
Indices: 7268602--7268726 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
7268592 ATTATGTGAA
* * * *
7268602 GTTTGAATAAATTGGATTAAATGTTATGAATAAATTGAATAAATGTTAAGTGATCAATTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTAAATAAATGTGAAATGATCAATTGGTT
* *
7268665 GTTTGAATATATTGGATAAAATGTTATGGATAAATTAAATAAATGTGAAATGAT-AAGTTGGT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTAAATAAATGTGAAATGATCAA-TTGGT
7268727 CGTGACATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 2 0.04
63 53 0.96
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGAATAAATTAAATAAATGTGAAATGATCAATTGGTT
Found at i:7268814 original size:14 final size:14
Alignment explanation
Indices: 7268795--7268825 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7268785 TGATAAGTTG
7268795 GTTTTAATGTATAT
1 GTTTTAATGTATAT
7268809 GTTTTAATGTATAT
1 GTTTTAATGTATAT
7268823 GTT
1 GTT
7268826 AAGAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:7268972 original size:34 final size:34
Alignment explanation
Indices: 7268933--7269005 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
7268923 TTAAGTTGAA
7268933 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
* * *
7268967 TTTAATTTTAAATTTCTAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
*
7269001 ATTAA
1 TTTAA
7269006 AAACATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACCATAATTTGTAT
Found at i:7271676 original size:60 final size:61
Alignment explanation
Indices: 7271577--7271721 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 61
7271567 TTAATGGAAG
* * * * *
7271577 GCGCGTCCCCGGGGATGCACCTTTCCCCCGTGGCGTCCGA-TCCAGCATAATCCC--GTGAAA
1 GCGCATCCCCGGGGATGCACCTTTCACACGTGGCATCCGACT-CAGCATAAACCCAGGT-AAA
* **
7271637 GCGTATCCCCGGGGATGCGTCTTTCACACGTGGCATCCGACTCAGCATAAACCCAGGTAAA
1 GCGCATCCCCGGGGATGCACCTTTCACACGTGGCATCCGACTCAGCATAAACCCAGGTAAA
*
7271698 GCGCGTCCCCGGGGATGCACCTTT
1 GCGCATCCCCGGGGATGCACCTTT
7271722 GTGCCAACAC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 44 0.63
61 24 0.34
62 2 0.03
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (61 bp):
GCGCATCCCCGGGGATGCACCTTTCACACGTGGCATCCGACTCAGCATAAACCCAGGTAAA
Found at i:7272320 original size:21 final size:20
Alignment explanation
Indices: 7272234--7272391 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
7272224 AAATGACCAA
**
7272234 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
7272253 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
7272273 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
7272293 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
7272314 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
7272335 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
7272355 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
7272376 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
7272392 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:7272384 original size:20 final size:20
Alignment explanation
Indices: 7272359--7272552 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
7272349 GATTTTCCAG
** *
7272359 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
7272379 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
7272399 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
7272419 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
7272439 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
7272459 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
7272479 TATCGCAACGCGAATTCGTA
1 AATCGCAACGCGAATCCGTA
*
7272499 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
7272520 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
7272540 AATCGCAACGCGA
1 AATCGCAACGCGA
7272553 TTTTTAAAGC
Statistics
Matches: 151, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 133 0.88
21 18 0.12
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:7272442 original size:60 final size:60
Alignment explanation
Indices: 7272359--7272552 Score: 248
Period size: 60 Copynumber: 3.2 Consensus size: 60
7272349 GATTTTCCAG
** * *
7272359 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
* * * *
7272419 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
* * *
7272479 TATCGCAACGCGAATTCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACG-CGAACACGT-AAATCGCAACGCGTATCCGTA
7272540 AATCGCAACGCGA
1 AATCGCAACGCGA
7272553 TTTTTAAAGC
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 78 0.68
61 35 0.31
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGAATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:7272970 original size:33 final size:33
Alignment explanation
Indices: 7272931--7273001 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
7272921 TTCACTTAGA
7272931 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
7272964 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
7272997 TTTCA
1 TTTCA
7273002 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:7273101 original size:21 final size:20
Alignment explanation
Indices: 7273075--7273183 Score: 88
Period size: 21 Copynumber: 5.7 Consensus size: 20
7273065 TGCAGAAGAG
7273075 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
7273096 TCGCAACGCGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
7273116 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
7273138 TTGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
7273152 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
*
7273171 TCGCAACGCGAAA
1 TCGCAACGAGAAA
7273184 CCAAAATCGC
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
14 10 0.14
16 2 0.03
17 2 0.03
19 12 0.17
20 11 0.15
21 25 0.35
22 9 0.13
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:7273174 original size:19 final size:19
Alignment explanation
Indices: 7273087--7273194 Score: 82
Period size: 19 Copynumber: 5.7 Consensus size: 19
7273077 GCAACGAGAT
7273087 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
** *
7273106 AAAATGACTATCTGCAACGAG
1 -AAATGAAAATC-GCAACGCG
*
7273127 AAAAATGAAAATTGCAA--CG
1 --AAATGAAAATCGCAACGCG
*
7273146 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
7273162 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
7273181 AAACCAAAATCGCA
1 AAATGAAAATCGCA
7273195 TTGCGATTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
18 1 0.01
19 27 0.39
20 9 0.13
21 11 0.16
22 9 0.13
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:7273231 original size:14 final size:14
Alignment explanation
Indices: 7273212--7273268 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7273202 TTTCATTTCG
7273212 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7273226 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7273245 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7273259 CGTTGCGATT
1 CGTTGCGATT
7273269 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7273237 original size:33 final size:33
Alignment explanation
Indices: 7273195--7273317 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
7273185 CAAAATCGCA
7273195 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
7273228 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
7273261 TTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTTGC----G--ATTCTCTCG
7273302 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
7273318 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 8 0.10
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:7273279 original size:21 final size:21
Alignment explanation
Indices: 7273253--7273317 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
7273243 CGCGTTGCGA
7273253 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
7273274 TTCTCTCGTTGCGATAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
7273294 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
7273315 TTC
1 TTC
7273318 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:7275161 original size:93 final size:93
Alignment explanation
Indices: 7275002--7275317 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
7274992 TAGATTGCTT
*
7275002 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7275067 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7275095 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7275160 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7275188 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7275253 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
7275281 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
7275318 AATACCCTGA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 221 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:7275473 original size:33 final size:33
Alignment explanation
Indices: 7275415--7275538 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
7275405 TAGTTTACTT
* * *
7275415 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
* **
7275449 TCGCAGCGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
7275482 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
7275515 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
7275539 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 70 0.86
34 11 0.14
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:7275485 original size:14 final size:14
Alignment explanation
Indices: 7275464--7275522 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
7275454 GCGCGAAATG
7275464 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
7275478 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
7275497 AAAATCGCAACGAC
1 AAAATCGCAACGAC
7275511 AAAATCGCAACG
1 AAAATCGCAACG
7275523 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:7275504 original size:19 final size:19
Alignment explanation
Indices: 7275480--7275538 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
7275470 GCAACGACAG
7275480 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
7275499 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
7275513 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
7275532 AATCGCA
1 AATCGCA
7275539 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.51
ACGTcount: A:0.47, C:0.31, G:0.15, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:7275556 original size:19 final size:19
Alignment explanation
Indices: 7275534--7275706 Score: 152
Period size: 19 Copynumber: 9.6 Consensus size: 19
7275524 GAAACCAAAA
*
7275534 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7275553 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
7275567 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
7275586 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
7275602 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
7275619 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
7275638 TCGCGTTGCGATTTT-AGTT
1 TCGCGTTGCGATTTTCA-TT
* * *
7275657 TCTCGTTACGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
7275676 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
7275696 TCGTGTTGCGA
1 TCGCGTTGCGA
7275707 AAGTAAACTA
Statistics
Matches: 123, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
14 17 0.14
16 8 0.07
17 8 0.07
19 77 0.63
20 13 0.11
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7275575 original size:14 final size:14
Alignment explanation
Indices: 7275556--7275612 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
7275546 TTTCATTTCG
7275556 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7275570 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
7275587 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
7275603 CGTTGCGATT
1 CGTTGCGATT
7275613 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7275581 original size:33 final size:33
Alignment explanation
Indices: 7275539--7275631 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
7275529 CAAAATCGCA
7275539 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
7275572 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
7275605 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
7275632 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:7277578 original size:14 final size:14
Alignment explanation
Indices: 7277559--7277594 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7277549 ATTGTTTAAT
7277559 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
7277573 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
7277587 TGATTTGT
1 TGATTTGT
7277595 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7277709 original size:19 final size:19
Alignment explanation
Indices: 7277685--7277772 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
7277675 GCATTATGTT
7277685 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
7277704 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
7277721 --AA-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
7277737 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
7277756 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
7277773 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
19 29 0.48
20 16 0.26
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:7277804 original size:53 final size:53
Alignment explanation
Indices: 7277685--7277791 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
7277675 GCATTATGTT
7277685 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACAAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACAAGAGAATCGCAATGC
*
7277737 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACAAGAGAATCGCAATGC
7277790 GA
1 GA
7277792 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 19 0.36
53 34 0.64
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACAAGAGAATCGCAATGC
Found at i:7277844 original size:14 final size:14
Alignment explanation
Indices: 7277825--7277879 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
7277815 CATTTCCGCA
7277825 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
7277839 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
7277856 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
7277872 TTGCGATT
1 TTGCGATT
7277880 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:7277850 original size:53 final size:53
Alignment explanation
Indices: 7277839--7278004 Score: 298
Period size: 53 Copynumber: 3.2 Consensus size: 53
7277829 GATTCTCTCG
7277839 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
7277891 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
* * *
7277944 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
7277997 TTGCGATT
1 TTGCGATT
7278005 CTCTCGTTGC
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 15 0.14
53 95 0.86
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (53 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:7277889 original size:86 final size:90
Alignment explanation
Indices: 7277787--7278018 Score: 358
Period size: 86 Copynumber: 2.7 Consensus size: 90
7277777 AGAATCGCAA
7277787 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
7277852 TTCGCATTGCGA-TTC-TCT-CG-T
66 TTCGCATTGCGATTTCATCTCCGAT
7277873 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
7277938 TTCGCATTGCGATTTTCATTTCCGCAT
66 TTCGCATTGCGA-TTTCATCTCCG-AT
*
7277965 TGCGATTTTC--TT-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATT
7278019 GTAATTTCCG
Statistics
Matches: 138, Mismatches: 2, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
86 103 0.75
87 14 0.10
88 3 0.02
89 3 0.02
90 4 0.03
92 11 0.08
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (90 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTCATCTCCGAT
Found at i:7278026 original size:33 final size:33
Alignment explanation
Indices: 7277805--7278018 Score: 227
Period size: 33 Copynumber: 6.2 Consensus size: 33
7277795 TCATTTCGCA
7277805 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
7277839 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
7277872 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG
* * * * *
7277909 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
* *
7277944 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
7277978 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
7278011 TTGCGATT
1 TTGCGATT
7278019 GTAATTTCCG
Statistics
Matches: 150, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
31 4 0.03
32 6 0.04
33 78 0.52
34 31 0.21
35 4 0.03
36 3 0.02
37 2 0.01
38 2 0.01
39 8 0.05
40 3 0.02
41 9 0.06
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:7278033 original size:53 final size:53
Alignment explanation
Indices: 7277839--7278037 Score: 196
Period size: 53 Copynumber: 3.8 Consensus size: 53
7277829 GATTCTCTCG
* *
7277839 TTGCGATTTTCA-TTTCGCATTGCGA-TTCTC-TCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCAGTTCCGCATTGCAATTTC-CGT-GTTGCGATTTTCATTTCGCA
* *
7277891 TTGCGATTTTCATTTCCGCATTGCGA-TTCTC-TCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCAGTTCCGCATTGCAATTTC-CGT-GTTGCGATTTTCATTTCGCA
* * * * *
7277944 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCAGTTCCGCATTGCAATTTCCGTGTTGCGATTTTCATTTCGCA
* *
7277997 TTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGTGTTGCGAT
1 TTGCGATT-T-TCAGTTCCGCATTGCAATTTCCGTGTTGCGAT
7278038 AGTCAAATGC
Statistics
Matches: 132, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
52 12 0.09
53 110 0.83
54 8 0.06
55 2 0.02
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (53 bp):
TTGCGATTTTCAGTTCCGCATTGCAATTTCCGTGTTGCGATTTTCATTTCGCA
Found at i:7280534 original size:24 final size:24
Alignment explanation
Indices: 7280500--7280546 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7280490 CTGAAACATC
7280500 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
7280524 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
7280547 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:7281267 original size:20 final size:20
Alignment explanation
Indices: 7281239--7281467 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
7281229 AAATTTCAGT
* * *
7281239 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
7281259 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
7281279 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
7281299 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
7281319 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
7281339 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
7281359 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
7281379 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
7281399 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
7281419 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
7281439 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
7281459 GTTGCGATT
1 GTTGCGATT
7281468 CTTTAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:7281520 original size:21 final size:20
Alignment explanation
Indices: 7281435--7281532 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
7281425 ATTTATGTGT
* *
7281435 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
7281455 TCGCGTTGCGATTCTTTAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
7281476 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
7281497 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
7281518 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
7281533 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:7281528 original size:42 final size:43
Alignment explanation
Indices: 7281435--7281533 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
7281425 ATTTATGTGT
* *
7281435 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTTAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
7281476 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
7281518 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
7281534 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:7281963 original size:3 final size:3
Alignment explanation
Indices: 7281957--7282061 Score: 93
Period size: 3 Copynumber: 33.0 Consensus size: 3
7281947 GTCTTCTTAT
* * * *
7281957 TTC TTC TTC TTC ATC CTC TTC TTCC TTC ATTC CTC TCC TTC TTC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC -TTC TTC TTC TTC TTC TT-C
* * *
7282005 TTC ATTC CTC TTC TTC TTC TTC TTTC TTC TTC TTT TTC TTT TTC TTC
1 TTC -TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
7282052 TTC TTTC TTC
1 TTC -TTC TTC
7282062 CATATGTGGT
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
3 65 0.78
4 18 0.22
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:7282003 original size:23 final size:23
Alignment explanation
Indices: 7281973--7282026 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
7281963 TTCTTCATCC
7281973 TCTTCTTCCTTCATTCCTCTCCT
1 TCTTCTTCCTTCATTCCTCTCCT
*
7281996 TCTTCTTCCTTCATTCCTCTTCT
1 TCTTCTTCCTTCATTCCTCTCCT
7282019 TCTTCTTC
1 TCTTCTTC
7282027 TTTCTTCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.04, C:0.41, G:0.00, T:0.56
Consensus pattern (23 bp):
TCTTCTTCCTTCATTCCTCTCCT
Found at i:7284905 original size:7 final size:7
Alignment explanation
Indices: 7284893--7284917 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7284883 TTACCTCTTC
7284893 ATTTAAA
1 ATTTAAA
7284900 ATTTAAA
1 ATTTAAA
7284907 ATTTAAA
1 ATTTAAA
7284914 ATTT
1 ATTT
7284918 GATAATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:7286192 original size:2 final size:2
Alignment explanation
Indices: 7286185--7286246 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
7286175 CCGCCCCGAT
* *
7286185 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7286224 TA TA T- TA -A T- TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7286247 TTTATATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 7 0.14
2 44 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7286208 original size:18 final size:17
Alignment explanation
Indices: 7286185--7286273 Score: 71
Period size: 16 Copynumber: 5.4 Consensus size: 17
7286175 CCGCCCCGAT
7286185 TATATATATATATA-TA
1 TATATATATATATATTA
*
7286201 TATATATA-ATATTTTA
1 TATATATATATATATTA
*
7286217 TATAT-TTTATATTAATTA
1 TATATATATATA-T-ATTA
*
7286235 TATATATA-ATATTTTA
1 TATATATATATATATTA
* *
7286251 TATTTTTATAT-TAATTA
1 TATATATATATAT-ATTA
7286268 TATATA
1 TATATA
7286274 AAATATTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
15 5 0.09
16 28 0.50
17 11 0.20
18 11 0.20
19 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATATATATATATTA
Found at i:7286258 original size:33 final size:34
Alignment explanation
Indices: 7286199--7286282 Score: 152
Period size: 33 Copynumber: 2.5 Consensus size: 34
7286189 TATATATATA
7286199 TATATATATAATATTTTATATATTTTATATTAAT
1 TATATATATAATATTTTATATATTTTATATTAAT
7286233 TATATATATAATATTTTATAT-TTTTATATTAAT
1 TATATATATAATATTTTATATATTTTATATTAAT
*
7286266 TATATATAAAATATTTT
1 TATATATATAATATTTT
7286283 TGGGTTCGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 28 0.57
34 21 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
TATATATATAATATTTTATATATTTTATATTAAT
Found at i:7286945 original size:23 final size:23
Alignment explanation
Indices: 7286915--7286960 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7286905 ATAGTGGTTT
*
7286915 GAATATATTTACAACATCAGTTG
1 GAATATATTTACAACAACAGTTG
7286938 GAATATATTTACAACAACAGTTG
1 GAATATATTTACAACAACAGTTG
7286961 AAATGCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (23 bp):
GAATATATTTACAACAACAGTTG
Found at i:7287068 original size:21 final size:23
Alignment explanation
Indices: 7287035--7287077 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
7287025 AATCATTACT
7287035 AAATCATTAAAT-ATCAAATCATG
1 AAATCATTAAATAAT-AAATCATG
7287058 AAAT-ATT-AATAATAAATCAT
1 AAATCATTAAATAATAAATCAT
7287078 TAGTAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCATTAAATAATAAATCATG
Found at i:7287466 original size:26 final size:25
Alignment explanation
Indices: 7287432--7287504 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
7287422 TTATTACTAA
* *
7287432 ATCATATCATTATTAAATCATTAAAT
1 ATCAAATCATTATTAAAT-AATAAAT
* *
7287458 ATCAAATCATTATTTTAATAATAATT
1 ATCAAATCATTA-TTAAATAATAAAT
*
7287484 ATTAAATCATTATT-AATAATA
1 ATCAAATCATTATTAAATAATA
7287505 TTAATAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 7 0.17
25 2 0.05
26 27 0.66
27 5 0.12
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
ATCAAATCATTATTAAATAATAAAT
Found at i:7287512 original size:30 final size:31
Alignment explanation
Indices: 7287476--7287543 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
7287466 ATTATTTTAA
*
7287476 TAATAATTATTAAATCATTATT-AATAA-TAT
1 TAATAATTAATAAATCA-TATTAAATAATTAT
*
7287506 TAATAATTAATCAATCATATTAAATAATTAT
1 TAATAATTAATAAATCATATTAAATAATTAT
7287537 TAATAAT
1 TAATAAT
7287544 AATTTTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 4 0.12
30 20 0.59
31 10 0.29
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (31 bp):
TAATAATTAATAAATCATATTAAATAATTAT
Found at i:7287672 original size:16 final size:18
Alignment explanation
Indices: 7287650--7287692 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
7287640 TTTGACTATT
*
7287650 TATAAATAAT-AATAAGA
1 TATAAATAATAAATAAAA
7287667 TA-AAAT-ATAAATAAAA
1 TATAAATAATAAATAAAA
7287683 TATAAATAAT
1 TATAAATAAT
7287693 TCAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 6 0.27
18 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAATAATAAATAAAA
Found at i:7287680 original size:11 final size:11
Alignment explanation
Indices: 7287650--7287691 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
7287640 TTTGACTATT
7287650 TATAAATAATAA
1 TATAAATAA-AA
*
7287662 TA-AGATAAAA
1 TATAAATAAAA
7287672 TATAAATAAAA
1 TATAAATAAAA
7287683 TATAAATAA
1 TATAAATAA
7287692 TTCAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 4 0.15
11 21 0.78
12 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
TATAAATAAAA
Found at i:7291223 original size:15 final size:15
Alignment explanation
Indices: 7291168--7291214 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
7291158 TTTTAATGGC
7291168 GCGGAACTTTTCCAT
1 GCGGAACTTTTCCAT
7291183 GCGGAACTTTTCCAT
1 GCGGAACTTTTCCAT
7291198 GCGGAACTTTTCCAT
1 GCGGAACTTTTCCAT
7291213 GC
1 GC
7291215 TGGAGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (15 bp):
GCGGAACTTTTCCAT
Found at i:7291753 original size:40 final size:40
Alignment explanation
Indices: 7291709--7291840 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
7291699 ATTTCCAATA
*
7291709 TCGCAACGCGAATATGT-AAA-TCACAACACATAAGTCAAAT
1 TCGCAACGCG-ATA-GTCAAATTCACAACACAAAAGTCAAAT
*
7291749 TCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACGCGATAGTCAAATTCACAACACAAAAGTCAAAT
* * * * * **
7291789 TCGCAACACAAAAGTCAAATTCGCAACACTGAATTTCAAAT
1 TCGCAACGCGATAGTCAAATTCACAACAC-AAAAGTCAAAT
7291830 TCGCAACGCGA
1 TCGCAACGCGA
7291841 AACACAATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.03
39 6 0.08
40 54 0.68
41 17 0.22
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (40 bp):
TCGCAACGCGATAGTCAAATTCACAACACAAAAGTCAAAT
Found at i:7291829 original size:21 final size:20
Alignment explanation
Indices: 7291732--7291836 Score: 138
Period size: 20 Copynumber: 5.2 Consensus size: 20
7291722 ATGTAAATCA
*
7291732 CAACACATAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
* * *
7291752 CAACGCGATAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
7291772 CAACACAAAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
7291792 CAACACAAAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
* **
7291812 CAACACTGAATTTCAAATTCG
1 CAACAC-AAAAGTCAAATTCG
7291833 CAAC
1 CAAC
7291837 GCGAAACACA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
20 59 0.80
21 15 0.20
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (20 bp):
CAACACAAAAGTCAAATTCG
Found at i:7292348 original size:20 final size:20
Alignment explanation
Indices: 7292325--7292375 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
7292315 AAACTTAAAT
7292325 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
7292345 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
7292365 TCGCAACACGA
1 TCGCAACACGA
7292376 TTTTAGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.49, C:0.24, G:0.18, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:7292401 original size:14 final size:14
Alignment explanation
Indices: 7292382--7292427 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
7292372 ACGATTTTAG
*
7292382 TTTCTCGTTGTGAT
1 TTTCTCGTTGCGAT
7292396 TTTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
7292410 TTTGGT-GTTGCGAT
1 TTT-CTCGTTGCGAT
7292424 TTTC
1 TTTC
7292428 ATTTTCGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.07, C:0.15, G:0.24, T:0.54
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:7292453 original size:20 final size:20
Alignment explanation
Indices: 7292414--7292453 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7292404 TGCGATTTTG
* * *
7292414 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
7292434 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
7292454 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:7294682 original size:21 final size:21
Alignment explanation
Indices: 7294592--7294689 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
7294582 GATGCACCTA
* *
7294592 TCATCATTCAAGAGGCGCCTC
1 TCATCGTTCAAGAGGCCCCTC
*
7294613 -CTATCGTTCAAGAGGCCTCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
7294634 TCATC-ATCGAAGA-GACCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
7294654 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
7294675 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
7294690 TTCCGCCGGC
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
20 15 0.25
21 43 0.73
22 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:7294688 original size:41 final size:41
Alignment explanation
Indices: 7294592--7294688 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
7294582 GATGCACCTA
* * * *
7294592 TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCTCTC
1 TCATC-TTCAAGAGACGCCTCCCACCGTTCAAGAGGCCCCTC
* *
7294634 TCATCATCGAAGAGAC-CCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCTTC-AAGAGACGCCTCCCACCGTTCAAGAGGCCCCTC
7294675 TCATCGTTCAAGAG
1 TCATC-TTCAAGAG
7294689 GTTCCGCCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 33 0.72
42 13 0.28
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.23
Consensus pattern (41 bp):
TCATCTTCAAGAGACGCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:7296620 original size:18 final size:18
Alignment explanation
Indices: 7296597--7296632 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7296587 AAGCCAGTTG
* *
7296597 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTAATTT
7296615 TGATTGCGATTTTAATTT
1 TGATTGCGATTTTAATTT
7296633 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:7299725 original size:14 final size:15
Alignment explanation
Indices: 7299689--7299726 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7299679 GAAATCATTG
7299689 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
7299704 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
7299719 AAAAATTA
1 AAAAATTA
7299727 GAGATGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:7299924 original size:19 final size:20
Alignment explanation
Indices: 7299883--7299955 Score: 85
Period size: 19 Copynumber: 3.6 Consensus size: 20
7299873 ACTAAAACTT
* *
7299883 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAATTCTA
*
7299903 GTTGTGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCTA
**
7299922 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-CTA
7299943 GTTGCGAATTTGA
1 GTTGCGAATTTGA
7299956 CTTTTGTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.37
20 16 0.35
21 13 0.28
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCTA
Found at i:7299969 original size:20 final size:20
Alignment explanation
Indices: 7299943--7300049 Score: 133
Period size: 20 Copynumber: 5.3 Consensus size: 20
7299933 GAAATTCCGC
7299943 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
7299963 ATTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
7299983 GTTACGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
7300003 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
7300023 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
7300043 GTTGCGA
1 GTTGCGA
7300050 TTTACAAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:7299984 original size:40 final size:40
Alignment explanation
Indices: 7299922--7300049 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
7299912 TTGAAATTCA
*
7299922 GTTGCGAATTTGA-AATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTA-T-CGCGTTGCGAATTTGACTTTTGT
* *
7299963 ATTGCGAATTTGACTATCGCGTTACGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
*
7300003 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
7300043 GTTGCGA
1 GTTGCGA
7300050 TTTACAAATT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 66 0.82
41 13 0.16
42 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
Found at i:7300063 original size:40 final size:40
Alignment explanation
Indices: 7299922--7300075 Score: 188
Period size: 40 Copynumber: 3.8 Consensus size: 40
7299912 TTGAAATTCA
7299922 GTTGCGAATTTGA-AATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACAA-T-CGCGTTGCGAATTTGACTTTTGT
* * *
7299963 ATTGCGAATTTGACTATCGCGTTACGAATTTGACTTTTGT
1 GTTGCGAATTTGACAATCGCGTTGCGAATTTGACTTTTGT
* *
7300003 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACAATCGCGTTGCGAATTTGACTTTTGT
* *
7300043 GTTGCG-ATTT-ACAAATTCGCGTTGTGAAATTGA
1 GTTGCGAATTTGAC-AA-TCGCGTTGCGAATTTGA
7300076 AAACTGAGTT
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 5 0.05
40 80 0.79
41 13 0.13
42 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTGACAATCGCGTTGCGAATTTGACTTTTGT
Found at i:7300087 original size:80 final size:79
Alignment explanation
Indices: 7299884--7300109 Score: 199
Period size: 80 Copynumber: 2.8 Consensus size: 79
7299874 CTAAAACTTG
* * ** * *
7299884 TTGCGAATTCGAAAATCTAGTTGTGAATTTG-AAATTCAGTTGCGAATTTGAAATTCCGCGTTGC
1 TTGCGAATTTGACAATCGCGTTGTGAATTTGAAAATTGAGTTGCGAATTTGATA-T-CGCGTTGC
*
7299948 GAATTTGACTTTTGTA
64 GAATTTGACTTCTGTA
* ** *** *
7299964 TTGCGAATTTGACTATCGCGTTACGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCG
1 TTGCGAATTTGACAATCGCGTTGTGAATTTGAAAATTGAGTTGCGAATTTGA-TATCGCGTTGCG
*
7300029 AATTTGACTTCTGTG
65 AATTTGACTTCTGTA
* * *
7300044 TTGCG-ATTT-ACAAATTCGCGTTGTGAAATTGAAAACTGAGTTGCGAAATTAGAGT-TCGCGTT
1 TTGCGAATTTGAC-AA-TCGCGTTGTGAATTTGAAAATTGAGTTGCG-AATTTGA-TATCGCGTT
7300106 GCGA
62 GCGA
7300110 TCTTATTGGT
Statistics
Matches: 115, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
78 2 0.02
79 5 0.04
80 84 0.73
81 23 0.20
82 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (79 bp):
TTGCGAATTTGACAATCGCGTTGTGAATTTGAAAATTGAGTTGCGAATTTGATATCGCGTTGCGA
ATTTGACTTCTGTA
Found at i:7301465 original size:2 final size:2
Alignment explanation
Indices: 7301458--7301532 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
7301448 TCAAATTAGA
7301458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7301500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7301533 GTTATACATG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7303989 original size:24 final size:24
Alignment explanation
Indices: 7303962--7304034 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
7303952 CGTTCATTTA
7303962 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
7303986 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
7304010 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
7304034 C
1 C
7304035 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:7303994 original size:14 final size:14
Alignment explanation
Indices: 7303972--7304028 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
7303962 CGTTCGTGAA
*
7303972 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
7303986 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
7304000 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
7304010 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
7304024 CGTTT
1 CGTTT
7304029 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:7304044 original size:24 final size:24
Alignment explanation
Indices: 7303973--7304047 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
7303963 GTTCGTGAAC
* * * *
7303973 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
7303997 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
7304021 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
7304045 GTT
1 GTT
7304048 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:7305133 original size:16 final size:16
Alignment explanation
Indices: 7305112--7305154 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
7305102 GTCTCCAACG
7305112 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
7305128 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
7305144 TTTATGTTCGT
1 TTTATGTTCGT
7305155 TTATGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:7308080 original size:20 final size:21
Alignment explanation
Indices: 7308041--7308081 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7308031 CTCTGTATTT
*
7308041 AATGAAAATCTATTTTTTAAA
1 AATGAAAATCTATTTATTAAA
*
7308062 AATGAATATC-ATTTATTAAA
1 AATGAAAATCTATTTATTAAA
7308082 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
AATGAAAATCTATTTATTAAA
Found at i:7308602 original size:4 final size:4
Alignment explanation
Indices: 7308593--7308625 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7308583 ATAGAAATTT
7308593 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
7308626 AGAGGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:7318425 original size:13 final size:13
Alignment explanation
Indices: 7318407--7318431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7318397 ATAGTTGAAC
7318407 AGTCTTCATATGT
1 AGTCTTCATATGT
7318420 AGTCTTCATATG
1 AGTCTTCATATG
7318432 CGCGTCTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:7321801 original size:23 final size:23
Alignment explanation
Indices: 7321775--7321843 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
7321765 TATTGTTTGT
* *
7321775 GAACATATTCATTTAATATTCAC
1 GAACATATTCGTTTAATATTCAA
* * *
7321798 GAACGTGTTCGTTTATATGTTCAA
1 GAACATATTCGTTTA-ATATTCAA
*
7321822 TAACATATTCGTTTAATATTCA
1 GAACATATTCGTTTAATATTCA
7321844 TTTATAGTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (23 bp):
GAACATATTCGTTTAATATTCAA
Found at i:7322096 original size:12 final size:12
Alignment explanation
Indices: 7322079--7322127 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
7322069 GAGCAAATCA
7322079 ATAAACGAGTTC
1 ATAAACGAGTTC
*
7322091 ATAAACGAGCAAATC
1 ATAAACGAG---TTC
7322106 AATAAACGAGTTC
1 -ATAAACGAGTTC
7322119 ATAAACGAG
1 ATAAACGAG
7322128 CTTGTTTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
15 2 0.06
16 9 0.29
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (12 bp):
ATAAACGAGTTC
Found at i:7322103 original size:28 final size:28
Alignment explanation
Indices: 7322063--7322128 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
7322053 GTTCATAAAT
*
7322063 ATAAATGAGCAAATCAATAAACGAGTTC
1 ATAAACGAGCAAATCAATAAACGAGTTC
7322091 ATAAACGAGCAAATCAATAAACGAGTTC
1 ATAAACGAGCAAATCAATAAACGAGTTC
7322119 ATAAACGAGC
1 ATAAACGAGC
7322129 TTGTTTGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (28 bp):
ATAAACGAGCAAATCAATAAACGAGTTC
Found at i:7322112 original size:16 final size:16
Alignment explanation
Indices: 7322063--7322115 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
7322053 GTTCATAAAT
*
7322063 ATAAATGAGCAAATCA
1 ATAAACGAGCAAATCA
*
7322079 ATAAACGAG---TTC-
1 ATAAACGAGCAAATCA
7322091 ATAAACGAGCAAATCA
1 ATAAACGAGCAAATCA
7322107 ATAAACGAG
1 ATAAACGAG
7322116 TTCATAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
15 2 0.07
16 17 0.57
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (16 bp):
ATAAACGAGCAAATCA
Found at i:7322589 original size:32 final size:32
Alignment explanation
Indices: 7322546--7322609 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
7322536 GTTGCAACCT
*
7322546 AAAACGTTAAAATATTAACATTTTAGGTTGTG
1 AAAACGTTAAAATATTAACATTTTAAGTTGTG
*
7322578 AAAATGTTAAAATATTAACATTTTAAGTTGTG
1 AAAACGTTAAAATATTAACATTTTAAGTTGTG
7322610 TTCAACCGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (32 bp):
AAAACGTTAAAATATTAACATTTTAAGTTGTG
Done.