Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_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: 1136582
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:676621 original size:19 final size:19
Alignment explanation
Indices: 676528--676661 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
676518 TAGTTTACTT
*
676528 TCGCAACACGAAACT-AAAA
1 TCGCAACGCGAAA-TGAAAA
**
676547 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
676566 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
676585 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
676599 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
676618 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
676632 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
676651 TCGCAATGCGA
1 TCGCAACGCGA
676662 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 7, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 59 0.61
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:676679 original size:19 final size:19
Alignment explanation
Indices: 676657--676785 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
676647 AAAATCGCAA
676657 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
676676 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
676690 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
676709 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
676723 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
676742 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
676761 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
676781 TGCGA
1 TGCGA
676786 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:676699 original size:33 final size:33
Alignment explanation
Indices: 676657--676748 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
676647 AAAATCGCAA
676657 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
676690 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
676723 TGCGATTTTTATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
676749 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:676949 original size:93 final size:93
Alignment explanation
Indices: 676833--677580 Score: 1480
Period size: 93 Copynumber: 8.1 Consensus size: 93
676823 ATGGATTGCA
676833 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
676897 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
676925 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
676990 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677018 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
677083 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677111 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
677176 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677204 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
677269 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677297 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
677362 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677390 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
677455 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677483 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
677548 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
677576 TTACT
1 TTACT
677581 AAGCAATCTA
Statistics
Matches: 654, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 650 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:679303 original size:14 final size:14
Alignment explanation
Indices: 679284--679340 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
679274 TTGAAATGAA
679284 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
679298 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
679317 AATCGCAACGAGAG
1 AATCGCAACGAGAG
679331 AATCGCAACG
1 AATCGCAACG
679341 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:679321 original size:33 final size:33
Alignment explanation
Indices: 679276--679357 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
679266 TCTTTTGGTT
679276 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
679309 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
679342 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
679358 TGCGATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:679322 original size:19 final size:19
Alignment explanation
Indices: 679298--679362 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
679288 GCAACGAGAG
*
679298 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
679317 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
679331 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
679350 AATCGCAATGCGA
1 AATCGCAACGCGA
679363 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:679393 original size:14 final size:14
Alignment explanation
Indices: 679374--679430 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
679364 TTTGGTTTCG
679374 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
679388 CGTTGCGATTTTCATATCG
1 CGTTGCGA--TTC---TCT
679407 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
679421 CGTTGCGATT
1 CGTTGCGATT
679431 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:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:679408 original size:33 final size:33
Alignment explanation
Indices: 679371--679435 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
679361 GATTTTGGTT
679371 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
679404 TCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
679436 TTCTCTCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.43
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
Found at i:679471 original size:41 final size:41
Alignment explanation
Indices: 679414--679491 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
679404 TCGCGTTGCG
*
679414 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
679455 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
679492 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:679476 original size:20 final size:21
Alignment explanation
Indices: 679415--679490 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
679405 CGCGTTGCGA
679415 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
679436 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
679456 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
679477 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
679491 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:679612 original size:33 final size:33
Alignment explanation
Indices: 679570--679640 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
679560 AATACTAACT
*
679570 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
679603 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
679636 TGAAA
1 TGAAA
679641 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:679874 original size:22 final size:22
Alignment explanation
Indices: 679822--679876 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
679812 TGGTTGTGAG
**
679822 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
679844 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
679866 GGATTTCTTCG
1 GGATTTCTTCG
679877 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:680048 original size:20 final size:20
Alignment explanation
Indices: 680023--680156 Score: 128
Period size: 20 Copynumber: 6.7 Consensus size: 20
680013 CTTTAAATAT
680023 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
680043 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
680065 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
680084 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
680104 CGAGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
680124 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
680144 CGCGTTGCGATTT
1 CGCGTTGCGATTT
680157 TGGAAAATCG
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.02
20 75 0.80
21 15 0.16
22 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:680173 original size:21 final size:21
Alignment explanation
Indices: 680143--680225 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
680133 ATTTTCATAT
*
680143 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
680164 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
680185 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
680206 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
680226 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:680216 original size:42 final size:43
Alignment explanation
Indices: 680123--680221 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
680113 ATTTATGTGT
* *
680123 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
680164 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
680206 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
680222 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:680587 original size:24 final size:24
Alignment explanation
Indices: 680542--680589 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
680532 TGCAGACATA
* *
680542 GACAGGATATATGTATATATATAT
1 GACAGGATATATATATAAATATAT
680566 GACAGGATATATA-ATTAAATATAT
1 GACAGGATATATATA-TAAATATAT
680590 CAAAACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (24 bp):
GACAGGATATATATATAAATATAT
Found at i:683619 original size:22 final size:22
Alignment explanation
Indices: 683594--683664 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
683584 CCGAATGGGG
683594 TATCGATACCATAGAAGGGAAA
1 TATCGATACCATAGAAGGGAAA
* *
683616 TATCGATACCATAAAATGGAAA
1 TATCGATACCATAGAAGGGAAA
683638 TATCGATACCATAGAAGGGAAA
1 TATCGATACCATAGAAGGGAAA
683660 TATCG
1 TATCG
683665 GTATTGAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (22 bp):
TATCGATACCATAGAAGGGAAA
Found at i:684297 original size:46 final size:46
Alignment explanation
Indices: 684210--684299 Score: 137
Period size: 46 Copynumber: 1.9 Consensus size: 46
684200 GTCGAGGGTT
* *
684210 CTATGTGGTCCTTCGGGTTAAAATTATGTGGTCTTTTGGGACAAAAC
1 CTATGTGGTCCTTCGGG-TAAAATTATGTGGTCCTTCGGGACAAAAC
684257 CTATGTGGTCCTTCGGG-ACAAATTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGTA-AAATTATGTGGTCCTTCGGGACAA
684300 TTATGTGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 1 0.03
46 22 0.55
47 17 0.43
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (46 bp):
CTATGTGGTCCTTCGGGTAAAATTATGTGGTCCTTCGGGACAAAAC
Found at i:684313 original size:21 final size:22
Alignment explanation
Indices: 684211--684307 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 22
684201 TCGAGGGTTC
684211 TATGTGGTCCTTCGGGTTA-AAAT
1 TATGTGGTCCTTCGGG--ACAAAT
* * *
684234 TATGTGGTCTTTTGGGACAAAACC
1 TATGTGGTCCTTCGGGAC-AAA-T
684258 TATGTGGTCCTTCGGGACAAAT
1 TATGTGGTCCTTCGGGACAAAT
684280 TATGTGGTCCTTCGGGAC-AAT
1 TATGTGGTCCTTCGGGACAAAT
684301 TATGTGG
1 TATGTGG
684308 CACTTCAGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
21 11 0.17
22 18 0.28
23 20 0.31
24 16 0.25
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (22 bp):
TATGTGGTCCTTCGGGACAAAT
Found at i:688800 original size:15 final size:15
Alignment explanation
Indices: 688780--688809 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
688770 TCTTAAAAAT
688780 ATTTTAACTTTTAAC
1 ATTTTAACTTTTAAC
*
688795 ATTTTAATTTTTAAC
1 ATTTTAACTTTTAAC
688810 TAGAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAACTTTTAAC
Found at i:689294 original size:2 final size:2
Alignment explanation
Indices: 689287--689318 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
689277 ATTCTATCAT
689287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
689319 ACTCTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:693156 original size:12 final size:12
Alignment explanation
Indices: 693139--693170 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
693129 CTTATTTTAA
693139 TCTTGTTTCTTT
1 TCTTGTTTCTTT
693151 TCTTGTTTCTTT
1 TCTTGTTTCTTT
693163 TCTTGTTT
1 TCTTGTTT
693171 TCAGCACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.75
Consensus pattern (12 bp):
TCTTGTTTCTTT
Found at i:699134 original size:30 final size:30
Alignment explanation
Indices: 699100--699163 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
699090 ATATATGAGC
* *
699100 TATGTGATCCTATGAGA-ATATGAAAAGAGA
1 TATGTGAACATATGA-ATATATGAAAAGAGA
*
699130 TATGTGAACATATGAATTATATGAAAAGTGA
1 TATGTGAACATATGAA-TATATGAAAAGAGA
699161 TAT
1 TAT
699164 AAATTACCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 13 0.45
31 15 0.52
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (30 bp):
TATGTGAACATATGAATATATGAAAAGAGA
Found at i:699168 original size:21 final size:21
Alignment explanation
Indices: 699139--699178 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
699129 ATATGTGAAC
* *
699139 ATATGAATTATATGAAAAGTG
1 ATATAAATTACATGAAAAGTG
*
699160 ATATAAATTACCTGAAAAG
1 ATATAAATTACATGAAAAG
699179 AAGCTATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (21 bp):
ATATAAATTACATGAAAAGTG
Found at i:703631 original size:17 final size:17
Alignment explanation
Indices: 703611--703649 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
703601 AAAATATATT
*
703611 TAAATTTAAAATCAAAA
1 TAAATTTAAAAACAAAA
703628 TAAATTTAAAAACAAAA
1 TAAATTTAAAAACAAAA
*
703645 CAAAT
1 TAAAT
703650 AAACTCGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATTTAAAAACAAAA
Found at i:706269 original size:16 final size:16
Alignment explanation
Indices: 706248--706288 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
706238 TTTTTCCTTA
706248 TTTTTTAATCTAATAT
1 TTTTTTAATCTAATAT
* *
706264 TTTTTTTATCTTATAT
1 TTTTTTAATCTAATAT
*
706280 TATTTTAAT
1 TTTTTTAAT
706289 TTATCCCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTAATCTAATAT
Found at i:706270 original size:17 final size:17
Alignment explanation
Indices: 706245--706285 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
706235 AGATTTTTCC
706245 TTATTTTTTAATCTAATA
1 TTATTTTTT-ATCTAATA
*
706263 TT-TTTTTTATCTTATA
1 TTATTTTTTATCTAATA
706279 TTATTTT
1 TTATTTT
706286 AATTTATCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTTATCTAATA
Found at i:706292 original size:15 final size:15
Alignment explanation
Indices: 706246--706292 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
706236 GATTTTTCCT
*
706246 TATTTTTTAATCTAA
1 TATTTTTTAATCTTA
*
706261 TATTTTTTTTATCTTA
1 TA-TTTTTTAATCTTA
706277 TATTATTTTAAT-TTA
1 TATT-TTTTAATCTTA
706292 T
1 T
706293 CCCAGATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTAATCTTA
Found at i:712672 original size:2 final size:2
Alignment explanation
Indices: 712667--712691 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
712657 TATATTAAAG
712667 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 A
712692 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:712696 original size:2 final size:2
Alignment explanation
Indices: 712691--712721 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
712681 ATATATATAT
712691 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
712722 TGTAATAAAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:714166 original size:29 final size:29
Alignment explanation
Indices: 714123--714205 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
714113 CTCACCTAAC
714123 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
714153 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
714182 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
714206 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:718939 original size:29 final size:29
Alignment explanation
Indices: 718896--718978 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
718886 CTCACCTAAC
718896 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
718926 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
718955 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
718979 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:720348 original size:24 final size:25
Alignment explanation
Indices: 720281--720346 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
720271 AGAATATGAA
720281 TTTTTAAAATTTTAAAAGGTAATAT
1 TTTTTAAAATTTTAAAAGGTAATAT
720306 TTTTTAAAATTTTAAAAGGTAATAT
1 TTTTTAAAATTTTAAAAGGTAATAT
720331 TTTTTAAAATTTTAAA
1 TTTTTAAAATTTTAAA
720347 GGGATAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (25 bp):
TTTTTAAAATTTTAAAAGGTAATAT
Found at i:724378 original size:20 final size:21
Alignment explanation
Indices: 724332--724389 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
724322 GAACCCCAGG
*
724332 GGGGGTATCGATTCCCCTTCAAA
1 GGGGGAATCGATT--CCTTCAAA
*
724355 GGGGGAATCGGTTCCTTC-AA
1 GGGGGAATCGATTCCTTCAAA
*
724375 GGGGGGATCGATTCC
1 GGGGGAATCGATTCC
724390 CTCTGCACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 15 0.48
21 5 0.16
23 11 0.35
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.24
Consensus pattern (21 bp):
GGGGGAATCGATTCCTTCAAA
Found at i:728043 original size:21 final size:20
Alignment explanation
Indices: 728001--728044 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
727991 TCAAAAGAAG
*
728001 TTTTAAGATCATCAATTTTC
1 TTTTAAGATCATCAATTATC
728021 TTTTGAAGATCATC-ATTGATC
1 TTTT-AAGATCATCAATT-ATC
728042 TTT
1 TTT
728045 GAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (20 bp):
TTTTAAGATCATCAATTATC
Found at i:736998 original size:9 final size:10
Alignment explanation
Indices: 736989--737050 Score: 62
Period size: 9 Copynumber: 6.5 Consensus size: 10
736979 TTTACCCATT
736989 TTATTTA-T-
1 TTATTTATTA
736997 TTATTTATTA
1 TTATTTATTA
737007 TTA-TTATTA
1 TTATTTATTA
*
737016 TTA-TTATAA
1 TTATTTATTA
737025 TTATTATATATA
1 TTATT-TAT-TA
737037 TTA-TTATTA
1 TTATTTATTA
737046 TTATT
1 TTATT
737051 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
8 7 0.15
9 23 0.50
10 8 0.17
11 4 0.09
12 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:737009 original size:3 final size:3
Alignment explanation
Indices: 737001--737051 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
736991 ATTTATTTAT
*
737001 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
737046 TTA TTA
1 TTA TTA
737052 AAAAATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:738049 original size:2 final size:2
Alignment explanation
Indices: 738042--738087 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
738032 TCCTTATCAG
738042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
738084 TA TA
1 TA TA
738088 GGTAAATATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:738304 original size:12 final size:11
Alignment explanation
Indices: 738287--738359 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
738277 TTATTTCCTT
738287 TTATTTTAATCA
1 TTATTTTAAT-A
*
738299 TTATTTGGAATA
1 TTATTT-TAATA
*
738311 TTATTTTATTA
1 TTATTTTAATA
*
738322 TTATTATTATTA
1 TTATT-TTAATA
*
738334 TT-TTTAAATA
1 TTATTTTAATA
* *
738344 TTATTTCATTA
1 TTATTTTAATA
738355 TTATT
1 TTATT
738360 ATTTTTATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 6 0.12
11 21 0.41
12 21 0.41
13 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:738322 original size:3 final size:3
Alignment explanation
Indices: 738309--738370 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
738299 TTATTTGGAA
* * *
738309 TAT TAT T-T TAT TAT TAT TAT TAT TAT TTT TAAA TAT TAT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
*
738353 TAT TAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT
738371 ATATATATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.92
4 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:738357 original size:27 final size:25
Alignment explanation
Indices: 738317--738366 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
738307 AATATTATTT
738317 TATTATTATTATTATTATTTTTAAA
1 TATTATTATTATTATTATTTTTAAA
738342 TATTATTTCATTATTATTATTTTTA
1 TATTA-TT-ATTATTATTATTTTTA
738367 TTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTATTATTATTATTATTTTTAAA
Found at i:738375 original size:2 final size:2
Alignment explanation
Indices: 738368--738411 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
738358 TTATTTTTAT
738368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
738409 TA T
1 TA T
738412 TTGTTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:739192 original size:18 final size:16
Alignment explanation
Indices: 739165--739205 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
739155 TTTCTTTCAA
*
739165 ATTTTTTATTACTTATT
1 ATTTTTTATTA-TTAAT
739182 ATTTTTATATTATTAAT
1 ATTTTT-TATTATTAAT
739199 ATTTTTT
1 ATTTTTT
739206 TCAGGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.73
18 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTTATTATTAAT
Found at i:740921 original size:14 final size:14
Alignment explanation
Indices: 740902--740939 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
740892 AATATACATT
740902 TTTACATTTGCATA
1 TTTACATTTGCATA
*
740916 TTTACATTTGCATC
1 TTTACATTTGCATA
*
740930 TTTGCATTTG
1 TTTACATTTG
740940 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (14 bp):
TTTACATTTGCATA
Found at i:740944 original size:20 final size:20
Alignment explanation
Indices: 740921--740963 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
740911 GCATATTTAC
740921 ATTTGCATCTTTGCATTTGT
1 ATTTGCATCTTTGCATTTGT
** * *
740941 ATTTTTATGTTTGCTTTTGT
1 ATTTGCATCTTTGCATTTGT
740961 ATT
1 ATT
740964 GCACAATTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (20 bp):
ATTTGCATCTTTGCATTTGT
Found at i:749104 original size:22 final size:22
Alignment explanation
Indices: 749077--749131 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
749067 ATATACACTC
*
749077 TTTAAAGATGATAGATTCTCTT
1 TTTAAAGATGACAGATTCTCTT
749099 TTTAAAGATGACAGATTCTCTT
1 TTTAAAGATGACAGATTCTCTT
*
749121 TTCAAAGATGA
1 TTTAAAGATGA
749132 AAGCTTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTTAAAGATGACAGATTCTCTT
Found at i:749735 original size:113 final size:113
Alignment explanation
Indices: 749538--750874 Score: 1475
Period size: 113 Copynumber: 11.8 Consensus size: 113
749528 AGTTCAAATC
* * *
749538 CATCATTCAATGGATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
749602 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* * *
749650 CATCATTCGATAGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
749715 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* ** *
749763 CATTATTCGATGGATCAACATTACCAGGGCGAGTTCATAATAAGAAGAACTCATCT---------
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
749819 -GAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTTGACTT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* * * *
749866 CATCATTCGATGGATCAGCATTACCAGGGA-AGTTCATAATGAGAAGAACTTATCTGAAAAAGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
** * *
749930 AGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGTTTAAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * *
749978 CATCATTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * ** *
750043 GG-AGAAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATC
63 GGAAG-AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * * *
750094 CATCACTT-AATGAATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 CATCA-TTCGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
750157 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * *
750207 TATCATTCGATGGATCAGCATTGCCA-GAAG-GTTCATAATGAGAAGAACTTATCTGAAG-AGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
750269 AGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTTGCTTG-ATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTTGCTTGAATT
*** *
750317 CTATCACAGAAAAAGATAGATCAACATTAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCA
1 C-AT--C---ATTCGATGGATCAACATT---A---CCAGGTAGAGTTCATAATGAGAAGAACTCA
* * *
750382 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATT
54 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * ** * *
750442 CATCATTCGATGGATTATCATTTCAAAAGG-A-AGTTCATAATGAGAAGAACTTATCTGAAAAAG
1 CATCATTCGATGGATCAACA-TT-ACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * * *
750505 GAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATT
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * *
750555 CATCATTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * * ** *
750620 GGAGGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * * *
750671 CATCACTT-GATGAATCAGCTTTTCCAGAG-AAAATTCATAATGAGAAGAACTCATCTGAAGAAG
1 CATCA-TTCGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* *
750734 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * *
750784 CATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
750849 ATAAGAAGTTCATAATGAGAAGAACT
66 AGAAGAAGTTCATAATGAGAAGAACT
750875 CATCTGAAGA
Statistics
Matches: 1049, Mismatches: 127, Indels: 97
0.82 0.10 0.08
Matches are distributed among these distances:
102 23 0.02
103 72 0.07
110 39 0.04
111 42 0.04
112 92 0.09
113 476 0.45
114 5 0.00
115 7 0.01
116 190 0.18
117 6 0.01
118 2 0.00
119 10 0.01
120 2 0.00
122 4 0.00
123 3 0.00
124 36 0.03
125 40 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:750231 original size:229 final size:225
Alignment explanation
Indices: 749819--750872 Score: 1187
Period size: 229 Copynumber: 4.6 Consensus size: 225
749809 GAACTCATCT
* * *
749819 GAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTTGACTTCATCA-TTCGATGGATC
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCACTT-GATGAATC
* * * *
749882 AGCATTACCAGGGA-AGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCATAAT
64 AGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * *
749946 GAGAAGAGTTTGTTCAACCTTTTGTTTAAATTCATCATTTGATAGATCAACATTGCCAGGTAGAG
129 GAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATTGCCAGG-AGAG
750011 TTCATAATGAGAAGAACTCGTCATCTAAAGAAGG-A
193 TTCATAATGAGAAGAACT--T-ATCTAAAGAAGGAA
* * * ** * *
750046 GAAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGAATCA
1 G-AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGAATCA
* * *
750111 GCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
65 GCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
750175 GAGAAGAATTTGTTCAACCTTTTGCTTGAATTTATCATTCGATGGATCAGCATTGCCAGAAG-GT
129 GAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATTGCCAGGAGAGT
*
750239 TCATAATGAGAAGAACTTATCTGAAG-AGGAA
194 TCATAATGAGAAGAACTTATCTAAAGAAGGAA
* *
750270 GAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTTGCTTG-ATTCTATCACAGAAAAAGAT
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTTGCTTGAATTC-ATCAC---------T
* * * *
750334 AGATCAACATTAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
55 TGAT-GA-ATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * * *
750399 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTCGATGGATTATCATT
118 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATT
* *
750464 TCAAAAGGA-AGTTCATAATGAGAAGAACTTATCTGAAA-AAGGAA
183 GC--CAGGAGAGTTCATAATGAGAAGAACTTATCT-AAAGAAGGAA
* * * * *
750508 GAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCATTTGAT-AGATCA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGA-ATCA
* * *
750572 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAGGAAGAAATTCATA
65 GCATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * * *
750637 ATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGAATCAGCTTTTCCAGAGA
127 ATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTCGATGGATCAGCATTGCCAG-GA
* * * *
750701 AAATTCATAATGAGAAGAACTCATCTGAAGAAGGAA
190 GAGTTCATAATGAGAAGAACTTATCTAAAGAAGGAA
* * * *
750737 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGAATCAG
* *
750802 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAATAAGAAGTTCATAATGA
66 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
750867 GAAGAA
131 GAAGAA
750873 CTCATCTGAA
Statistics
Matches: 710, Mismatches: 83, Indels: 69
0.82 0.10 0.08
Matches are distributed among these distances:
223 34 0.05
224 21 0.03
225 1 0.00
226 68 0.10
227 23 0.03
228 66 0.09
229 298 0.42
230 2 0.00
233 3 0.00
234 2 0.00
235 111 0.16
237 38 0.05
238 43 0.06
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (225 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGAATCAG
CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATTGCCAGGAGAGTTC
ATAATGAGAAGAACTTATCTAAAGAAGGAA
Found at i:750798 original size:577 final size:557
Alignment explanation
Indices: 749531--750874 Score: 2018
Period size: 577 Copynumber: 2.4 Consensus size: 557
749521 TTAGCAAAGT
* * * *
749531 TCAAATCCATCA-TTCAATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTT-AATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
*
749594 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTTGAATTCATCATTC
* * * *
749658 GATAGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
129 GATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
* *** *
749723 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATTATTCGATGGATCAACATTACC
194 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATAAAAAGATAGATCAACATTACC
*
749788 AGGGCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGTTCATAATAAGAAGAACTTGTTCAACT
259 AGGGAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGTTCATAATAAGAAGAACTTGTTCAACT
* * * *
749853 TTTCGCTTGACTTCATCATTCGATGGATCAGCATTACCAGGGAAGTTCATAATGAGAAGAACTTA
324 TTTCGCTTAAATTCATCATTCGATGGATCAGCATTACAAAGGAAGTTCATAATGAGAAGAACTTA
* *
749918 TCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGTTTAAATTCATCA
389 TCTGAAAAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCA
749983 TTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAGA
454 TTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAGA
750048 AAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
519 AAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
750087 TCAAATCCATCACTTAATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTAATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
750152 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTTATCATTCGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCGA
* * *
750217 TGGATCAGCATTGCCA-GAAG-GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTT
131 TGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTT
* * *
750279 CACAATGAGAAGAGCTTGTTCAACCTTTTTGCTTG-ATTCTATCACAGAAAAAGATAGATCAACA
196 CATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTC-AT-----AAAAAGATAGATCAACA
* *
750343 TTAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
254 TT---A---CCAGGGAGAGTTCATAATAAGAAGAACTCATCT----------GAAGAAGTTCATA
* * * * * *
750408 ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTCGATGGATTATCATTTCAAAAGGA
303 ATAAGAAGAACTTGTTCAACTTTTCGCTTAAATTCATCATTCGATGGATCAGCATTAC-AAAGGA
750473 AGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
367 AGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
750538 AACCTTTTGTTTAAATTCATCATTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGA
432 AACCTTTTGTTTAAATTCATCATTTGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGA
* *
750603 ACTCGTCATCTGAAGAAGGAGGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
497 ACTCGTCATCTAAAGAAGGAGAAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
* *
750664 TCAAATCCATCACTTGATGAATCAGCTTTTCCAGAGAAAATTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTAATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
750729 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCGA
*
750794 TGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAATAAGAAGTT
131 TGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTT
750859 CATAATGAGAAGAACT
196 CATAATGAGAAGAACT
750875 CATCTGAAGA
Statistics
Matches: 709, Mismatches: 49, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
554 38 0.05
555 39 0.06
556 31 0.04
557 100 0.14
558 5 0.01
560 14 0.02
563 1 0.00
566 30 0.04
576 63 0.09
577 332 0.47
578 3 0.00
579 27 0.04
580 26 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (557 bp):
TCAAATCCATCACTTAATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCGA
TGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATAAAAAGATAGATCAACATTACCAG
GGAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTT
TCGCTTAAATTCATCATTCGATGGATCAGCATTACAAAGGAAGTTCATAATGAGAAGAACTTATC
TGAAAAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCATT
TGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAGAAA
GAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
Found at i:750870 original size:40 final size:40
Alignment explanation
Indices: 750815--750911 Score: 185
Period size: 40 Copynumber: 2.4 Consensus size: 40
750805 TGCCAGGTAG
*
750815 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAATAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
750855 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
750895 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
750912 GCTTGTTCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
Found at i:751284 original size:3 final size:3
Alignment explanation
Indices: 751276--751344 Score: 104
Period size: 3 Copynumber: 23.0 Consensus size: 3
751266 TTTTATTTAT
* *
751276 TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
751324 -TA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
751345 AAAAATAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:751774 original size:28 final size:28
Alignment explanation
Indices: 751717--751779 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
751707 CCTGCAAAAC
*
751717 AAAAAAACAGACAGAGGACAGAGAGAAA
1 AAAAAAACAGACAGAGAACAGAGAGAAA
* *
751745 AAAAAAACAGAACAGA-AACA-AGATACA
1 AAAAAAACAG-ACAGAGAACAGAGAGAAA
751772 AAAAAAAC
1 AAAAAAAC
751780 TACCAACGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.42
28 13 0.42
29 5 0.16
ACGTcount: A:0.70, C:0.13, G:0.16, T:0.02
Consensus pattern (28 bp):
AAAAAAACAGACAGAGAACAGAGAGAAA
Found at i:751774 original size:29 final size:28
Alignment explanation
Indices: 751717--751778 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
751707 CCTGCAAAAC
* *
751717 AAAAAAACAGACAGAGGACAGAGAGAAA
1 AAAAAAACAGACAGAGAACAGAGACAAA
*
751745 AAAAAAACAGAACAGA-AACAAGATACAAA
1 AAAAAAACAG-ACAGAGAAC-AGAGACAAA
751774 AAAAA
1 AAAAA
751779 CTACCAACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.71, C:0.11, G:0.16, T:0.02
Consensus pattern (28 bp):
AAAAAAACAGACAGAGAACAGAGACAAA
Found at i:752547 original size:3 final size:3
Alignment explanation
Indices: 752534--752593 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
752524 TTATTTGCAA
* * *
752534 TAT TAT T-T TAT TAT TAT TAT TGT TTT TAAT TAT TAT T-T CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
752578 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
752594 TATATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.90
4 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:752567 original size:16 final size:14
Alignment explanation
Indices: 752534--752593 Score: 75
Period size: 14 Copynumber: 4.1 Consensus size: 14
752524 TTATTTGCAA
752534 TATTATTTTATTAT
1 TATTATTTTATTAT
*
752548 TATTATTGTTTTTAAT
1 TATTATT-TTATT-AT
*
752564 TATTATTTCATTAT
1 TATTATTTTATTAT
752578 TATTATTATTATTAT
1 TATTATT-TTATTAT
752593 T
1 T
752594 TATATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
14 16 0.41
15 14 0.36
16 9 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TATTATTTTATTAT
Found at i:755218 original size:27 final size:27
Alignment explanation
Indices: 755187--755243 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
755177 TCTTTAATAC
755187 TGAAGTCATTTAATCAGTTAATTGATA
1 TGAAGTCATTTAATCAGTTAATTGATA
*
755214 TGAAGTCGTTTAATCAGTTAATTGATA
1 TGAAGTCATTTAATCAGTTAATTGATA
755241 TGA
1 TGA
755244 CACCATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (27 bp):
TGAAGTCATTTAATCAGTTAATTGATA
Found at i:755252 original size:27 final size:27
Alignment explanation
Indices: 755187--755252 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
755177 TCTTTAATAC
*
755187 TGAAGTCATTTAATCAGTTAATTGATA
1 TGAAGCCATTTAATCAGTTAATTGATA
* *
755214 TGAAGTCGTTTAATCAGTTAATTGATA
1 TGAAGCCATTTAATCAGTTAATTGATA
755241 TGACA-CCATTTA
1 TGA-AGCCATTTA
755253 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (27 bp):
TGAAGCCATTTAATCAGTTAATTGATA
Found at i:766261 original size:34 final size:34
Alignment explanation
Indices: 766215--766345 Score: 104
Period size: 34 Copynumber: 3.6 Consensus size: 34
766205 TATGAAACTA
766215 TGGGA-ATGCTCGGCGTCTTCAAGCAATTGGCCTG
1 TGGGATAT-CTCGGCGTCTTCAAGCAATTGGCCTG
* ** *
766249 TGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGCCAAG
1 TGGGATATCTCGGCGTC-T-T-CAAGC-A-ATTG---GCC-TG
*
766292 -GTGGATCTCTCGGCGTCTTCAAGCAATTGGCCTG
1 TG-GGATATCTCGGCGTCTTCAAGCAATTGGCCTG
766326 TGGGATATCTCGGCGTCTTC
1 TGGGATATCTCGGCGTCTTC
766346 TGCATGCTAC
Statistics
Matches: 75, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
34 32 0.43
35 7 0.09
36 1 0.01
37 4 0.05
38 3 0.04
39 3 0.04
40 4 0.05
41 1 0.01
42 5 0.07
43 15 0.20
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (34 bp):
TGGGATATCTCGGCGTCTTCAAGCAATTGGCCTG
Found at i:766350 original size:77 final size:77
Alignment explanation
Indices: 766223--766389 Score: 334
Period size: 77 Copynumber: 2.2 Consensus size: 77
766213 TATGGGAATG
766223 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
1 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
766288 CAAGGTGGATCT
66 CAAGGTGGATCT
766300 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
1 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
766365 CAAGGTGGATCT
66 CAAGGTGGATCT
766377 CTCGGCGTCTTCA
1 CTCGGCGTCTTCA
766390 CCTGTCGTCT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (77 bp):
CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
CAAGGTGGATCT
Found at i:768393 original size:22 final size:22
Alignment explanation
Indices: 768368--769323 Score: 156
Period size: 23 Copynumber: 44.3 Consensus size: 22
768358 AACTATTTAA
*
768368 ATTTAATTATTTAACTATAATG
1 ATTTAATTATTTAACTTTAATG
*
768390 ATTTAATGATTTAACTTTAATG
1 ATTTAATTATTTAACTTTAATG
*
768412 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* * * *
768435 ATTTAA--CTTTAA--TGATTT
1 ATTTAATTATTTAACTTTAATG
* *
768453 A-ATAA-TAATT-ACTTTAATG
1 ATTTAATTATTTAACTTTAATG
*
768472 ATTT-A--A--TGA-TTTAATG
1 ATTTAATTATTTAACTTTAATG
* *
768488 ATTTAATAATAATT-ATTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* * *
768511 ATTTAATGATTTAA-TAATAATT
1 ATTTAATTATTTAACT-TTAATG
* *
768533 ACTTTAATGATTTAATGATTTAATG
1 A-TTTAATTATTTAA--CTTTAATG
*
768558 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
768581 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
*
768605 ATTTAATGATTTAA---TAAT-
1 ATTTAATTATTTAACTTTAATG
* * * *
768623 AATTACTT-TAATGA-TTTAATG
1 ATTTAATTAT-TTAACTTTAATG
*
768644 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
768667 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
* * *
768691 ATTTAATGATTTAA-TAATAATT
1 ATTTAATTATTTAACT-TTAATG
* *
768713 ACTTTAATGATTTAATGATTTAATG
1 A-TTTAATTATTTAA--CTTTAATG
*
768738 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
768761 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
*
768785 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* * * *
768808 ATTTAA--CTTTAA--TGATTT
1 ATTTAATTATTTAACTTTAATG
* *
768826 A-ATAA-TAATT-ACTTTAATG
1 ATTTAATTATTTAACTTTAATG
*
768845 ATTT-A--A--TGA-TTTAATG
1 ATTTAATTATTTAACTTTAATG
* *
768861 ATTTAATAATAATT-ATTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
768884 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
*
768908 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
768931 ATTTAA-T-TTTAA---TAAT-
1 ATTTAATTATTTAACTTTAATG
* *
768947 -TTAATAA-TAATT-ACTTAAATG
1 ATT--TAATTATTTAACTTTAATG
* * *
768968 ATTTAATGATTTAA-TAATAATT
1 ATTTAATTATTTAACT-TTAATG
* *
768990 ACTTTAATGATTTAATGATTTAATG
1 A-TTTAATTATTTAA--CTTTAATG
*
769015 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
*
769038 ATTT-A--A--TGA-TTTAATG
1 ATTTAATTATTTAACTTTAATG
*
769054 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
769077 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
* *
769101 ATTTAATGATTTAA---TAATTT
1 ATTTAATTATTTAACTTTAA-TG
*
769121 ACTTTAATGATTTAACTTTAATG
1 A-TTTAATTATTTAACTTTAATG
*
769144 ATTTAATAATAATT-ACTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
*
769167 ATTT-A--A--TGA-TTTAATG
1 ATTTAATTATTTAACTTTAATG
* *
769183 ATTTAATAATAATT-ATTTTAATG
1 ATTTAAT--TATTTAACTTTAATG
* *
769206 ATTTAATGATTTAATGATTTAATG
1 ATTTAATTATTTAA--CTTTAATG
* * *
769230 ATTTAATGATTTAA-TAATAATT
1 ATTTAATTATTTAACT-TTAATG
* * *
769252 ACTTTAATGATTTAATTTTAATA
1 A-TTTAATTATTTAACTTTAATG
*
769275 ATTTAATAATAATT-AC-TTAAT-
1 ATTTAAT--TATTTAACTTTAATG
* *
769296 -TTTAATGATTTAATTTTAATG
1 ATTTAATTATTTAACTTTAATG
769317 ATTTAAT
1 ATTTAAT
769324 AATAATTACT
Statistics
Matches: 703, Mismatches: 104, Indels: 254
0.66 0.10 0.24
Matches are distributed among these distances:
15 2 0.00
16 48 0.07
17 26 0.04
18 28 0.04
19 24 0.03
20 29 0.04
21 50 0.07
22 86 0.12
23 229 0.33
24 143 0.20
25 20 0.03
26 18 0.03
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTAATTATTTAACTTTAATG
Found at i:768396 original size:8 final size:8
Alignment explanation
Indices: 768385--769323 Score: 803
Period size: 8 Copynumber: 122.5 Consensus size: 8
768375 TATTTAACTA
768385 TAATGATT
1 TAATGATT
768393 TAATGATT
1 TAATGATT
*
768401 TAA--CTT
1 TAATGATT
768407 TAATGATT
1 TAATGATT
*
768415 TAAT-A-A
1 TAATGATT
*
768421 TAATTACTT
1 TAATGA-TT
768430 TAATGATT
1 TAATGATT
*
768438 TAA--CTT
1 TAATGATT
768444 TAATGATT
1 TAATGATT
*
768452 TAAT-A-A
1 TAATGATT
*
768458 TAATTACTT
1 TAATGA-TT
768467 TAATGATT
1 TAATGATT
768475 TAATGATT
1 TAATGATT
768483 TAATGATT
1 TAATGATT
*
768491 TAAT-A-A
1 TAATGATT
*
768497 TAATTATTT
1 TAATGA-TT
768506 TAATGATT
1 TAATGATT
768514 TAATGATT
1 TAATGATT
*
768522 TAAT-A-A
1 TAATGATT
*
768528 TAATTACTT
1 TAATGA-TT
768537 TAATGATT
1 TAATGATT
768545 TAATGATT
1 TAATGATT
768553 TAATGATT
1 TAATGATT
*
768561 TAAT-A-A
1 TAATGATT
*
768567 TAATTACTT
1 TAATGA-TT
768576 TAATGATT
1 TAATGATT
768584 TAATGATT
1 TAATGATT
768592 TAATGATT
1 TAATGATT
768600 TAATGATT
1 TAATGATT
768608 TAATGATT
1 TAATGATT
*
768616 TAAT-A-A
1 TAATGATT
*
768622 TAATTACTT
1 TAATGA-TT
768631 TAATGATT
1 TAATGATT
768639 TAATGATT
1 TAATGATT
*
768647 TAAT-A-A
1 TAATGATT
*
768653 TAATTACTT
1 TAATGA-TT
768662 TAATGATT
1 TAATGATT
768670 TAATGATT
1 TAATGATT
768678 TAATGATT
1 TAATGATT
768686 TAATGATT
1 TAATGATT
768694 TAATGATT
1 TAATGATT
*
768702 TAAT-A-A
1 TAATGATT
*
768708 TAATTACTT
1 TAATGA-TT
768717 TAATGATT
1 TAATGATT
768725 TAATGATT
1 TAATGATT
768733 TAATGATT
1 TAATGATT
*
768741 TAAT-A-A
1 TAATGATT
*
768747 TAATTACTT
1 TAATGA-TT
768756 TAATGATT
1 TAATGATT
768764 TAATGATT
1 TAATGATT
768772 TAATGATT
1 TAATGATT
768780 TAATGATT
1 TAATGATT
*
768788 TAAT-A-A
1 TAATGATT
*
768794 TAATTACTT
1 TAATGA-TT
768803 TAATGATT
1 TAATGATT
*
768811 TAA--CTT
1 TAATGATT
768817 TAATGATT
1 TAATGATT
*
768825 TAAT-A-A
1 TAATGATT
*
768831 TAATTACTT
1 TAATGA-TT
768840 TAATGATT
1 TAATGATT
768848 TAATGATT
1 TAATGATT
768856 TAATGATT
1 TAATGATT
*
768864 TAAT-A-A
1 TAATGATT
*
768870 TAATTATTT
1 TAATGA-TT
768879 TAATGATT
1 TAATGATT
768887 TAATGATT
1 TAATGATT
768895 TAATGATT
1 TAATGATT
768903 TAATGATT
1 TAATGATT
*
768911 TAAT-A-A
1 TAATGATT
*
768917 TAATTACTT
1 TAATGA-TT
768926 TAATGATT
1 TAATGATT
768934 TAAT--TT
1 TAATGATT
*
768940 TAATAATT
1 TAATGATT
*
768948 TAAT-A-A
1 TAATGATT
*
768954 TAATTACTT
1 TAATGA-TT
*
768963 AAATGATT
1 TAATGATT
768971 TAATGATT
1 TAATGATT
*
768979 TAAT-A-A
1 TAATGATT
*
768985 TAATTACTT
1 TAATGA-TT
768994 TAATGATT
1 TAATGATT
769002 TAATGATT
1 TAATGATT
769010 TAATGATT
1 TAATGATT
*
769018 TAAT-A-A
1 TAATGATT
*
769024 TAATTACTT
1 TAATGA-TT
769033 TAATGATT
1 TAATGATT
769041 TAATGATT
1 TAATGATT
769049 TAATGATT
1 TAATGATT
*
769057 TAAT-A-A
1 TAATGATT
*
769063 TAATTACTT
1 TAATGA-TT
769072 TAATGATT
1 TAATGATT
769080 TAATGATT
1 TAATGATT
769088 TAATGATT
1 TAATGATT
769096 TAATGATT
1 TAATGATT
769104 TAATGATT
1 TAATGATT
*
769112 TAATAATT
1 TAATGATT
*
769120 T-A--CTT
1 TAATGATT
769125 TAATGATT
1 TAATGATT
*
769133 TAA--CTT
1 TAATGATT
769139 TAATGATT
1 TAATGATT
*
769147 TAAT-A-A
1 TAATGATT
*
769153 TAATTACTT
1 TAATGA-TT
769162 TAATGATT
1 TAATGATT
769170 TAATGATT
1 TAATGATT
769178 TAATGATT
1 TAATGATT
*
769186 TAAT-A-A
1 TAATGATT
*
769192 TAATTATTT
1 TAATGA-TT
769201 TAATGATT
1 TAATGATT
769209 TAATGATT
1 TAATGATT
769217 TAATGATT
1 TAATGATT
769225 TAATGATT
1 TAATGATT
769233 TAATGATT
1 TAATGATT
*
769241 TAAT-A-A
1 TAATGATT
*
769247 TAATTACTT
1 TAATGA-TT
769256 TAATGATT
1 TAATGATT
769264 TAAT--TT
1 TAATGATT
*
769270 TAATAATT
1 TAATGATT
*
769278 TAAT-A-A
1 TAATGATT
* *
769284 TAATTACT
1 TAATGATT
769292 TAAT--TT
1 TAATGATT
769298 TAATGATT
1 TAATGATT
769306 TAAT--TT
1 TAATGATT
769312 TAATGATT
1 TAATGATT
769320 TAAT
1 TAAT
769324 AATAATTACT
Statistics
Matches: 774, Mismatches: 76, Indels: 162
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.00
6 128 0.17
7 43 0.06
8 501 0.65
9 99 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (8 bp):
TAATGATT
Found at i:768440 original size:31 final size:31
Alignment explanation
Indices: 768405--769276 Score: 660
Period size: 31 Copynumber: 27.5 Consensus size: 31
768395 ATGATTTAAC
768405 TTTAATGATTTAATAATAATTACTTTAATGATTTAA
1 TTTAATGATTTAATAATAATTACTTTAATG-----A
768441 CTTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 -TTTAATGATTTAATAATAATTAC--------TTTAATGA
*
768481 TTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
768512 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* * * *
768543 TTTAATGATTTAATGAT--TTAATAATAATTA
1 TTTAATGATTTAATAATAATTACT-TTAATGA
* *
768573 CTTTAATGATTTAATGATTTAATGA-TTTAATGA
1 -TTTAATGATTTAAT-A-ATAATTACTTTAATGA
768606 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
768637 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* *
768668 TTTAATGATTTAATGATTTAATGA-TTTAATGA
1 TTTAATGATTTAAT-A-ATAATTACTTTAATGA
* * * *
768700 TTTAATAATAATTACT-TTAATGA-TTTAATGA
1 TTTAATGAT--TTAATAATAATTACTTTAATGA
768731 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* *
768762 TTTAATGATTTAATGATTTAATGA-TTTAAT-A
1 TTTAATGATTTAAT-A-ATAATTACTTTAATGA
* * *
768793 -ATAATTACTTTAATGAT--TTAACTTTAATGA
1 TTTAATGA-TTTAATAATAATT-ACTTTAATGA
* * * *
768823 TTTAATAATAATTACT-TTAATGA-TTTAATGA
1 TTTAATGAT--TTAATAATAATTACTTTAATGA
*
768854 TTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
*
768885 TTTAATGA--T--T--TAATGA-TTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* * * *
768909 TTTAATAATAATTACT-TTAATGA-TTTAAT--
1 TTTAATGAT--TTAATAATAATTACTTTAATGA
* *
768938 TTTAATAATTTAATAATAATTACTTAAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
768969 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTAC--------TTTAATGA
769008 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* * * *
769039 TTTAATGATTTAATGAT--TTAATAATAATTA
1 TTTAATGATTTAATAATAATTACT-TTAATGA
* *
769069 CTTTAATGATTTAATGATTTAATGA-TTTAATGA
1 -TTTAATGATTTAAT-A-ATAATTACTTTAATGA
769102 TTTAATGATTTAATAAT--TTACTTTAATGATTTAA
1 TTTAATGATTTAATAATAATTACTTTAATG-----A
769136 CTTTAATGATTTAATAATAATTACTTTAATGA
1 -TTTAATGATTTAATAATAATTACTTTAATGA
* * * *
769168 TTTAATGATTTAATGAT--TTAATAATAATTA
1 TTTAATGATTTAATAATAATTACT-TTAATGA
* *
769198 TTTTAATGATTTAATGATTTAATGA-TTTAATGA
1 -TTTAATGATTTAAT-A-ATAATTACTTTAATGA
769231 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
769262 TTTAAT--TTTAATAAT
1 TTTAATGATTTAATAAT
769277 TTAATAATAA
Statistics
Matches: 693, Mismatches: 67, Indels: 158
0.75 0.07 0.17
Matches are distributed among these distances:
24 15 0.02
25 5 0.01
27 6 0.01
28 9 0.01
29 58 0.08
30 44 0.06
31 330 0.48
32 72 0.10
33 29 0.04
34 8 0.01
35 23 0.03
37 34 0.05
39 52 0.08
40 1 0.00
45 7 0.01
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (31 bp):
TTTAATGATTTAATAATAATTACTTTAATGA
Found at i:769267 original size:39 final size:39
Alignment explanation
Indices: 768368--769244 Score: 633
Period size: 39 Copynumber: 23.0 Consensus size: 39
768358 AACTATTTAA
* *
768368 ATTTAATTATTTAACT-ATAATGA-TTTAATGATTTAA--
1 ATTTAATGATTTAA-TAATAATTACTTTAATGATTTAATG
*
768404 CTTTAATGATTTAATAATAATTACTTTAATGATTTAA--
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
*
768441 CTTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
768480 ATTTAATGATTTAATAAT-A--A--TT-AT--TTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
768511 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
768550 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
* * * *
768589 ATTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATG
1 ATTTAATGATTT-A--A--TAAT-AATTACT-TTAATGA-TTTAATG
768636 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
* * * *
768675 ATTTAATGATTTAATGATTTAATGA-TTTAAT-A-ATAATT
1 ATTTAATGATTTAAT-A-ATAATTACTTTAATGATTTAATG
* * * *
768713 ACTTTAATGATTTAATGATTTAATGA-TTTAAT-A-ATAATT
1 A-TTTAATGATTTAAT-A-ATAATTACTTTAATGATTTAATG
* *
768752 ACTTTAATGATTTAATGATTTAATGA-TTTAATGATTTAAT-
1 A-TTTAATGATTTAAT-A-ATAATTACTTTAATGATTTAATG
* * *
768792 A-ATAATTACTTTAATGAT--TTAACTTTAATGATTTAAT-
1 ATTTAATGA-TTTAATAATAATT-ACTTTAATGATTTAATG
* * * *
768829 A-ATAATTACTTTAATGATTTAATGA-TTTAATGATTTAAT-
1 ATTTAATGA-TTTAAT-A-ATAATTACTTTAATGATTTAATG
* * * *
768868 A-ATAATTATTTTAATGATTTAATGA-TTTAATG-----AT-
1 ATTTAATGA-TTTAAT-A-ATAATTACTTTAATGATTTAATG
768902 --TTAATGATTTAATAATAATTACTTTAATGATTTAAT-
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
*
768938 -TTTAATAATTTAATAATAATTAC--T--T-A---AATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
768968 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
769007 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
769046 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
1 ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
* * *
769085 ATTTAATGATTTAATGATTTAATGA-TTTAATAATTT-A--
1 ATTTAATGATTTAAT-A-ATAATTACTTTAATGATTTAATG
* * * * *
769122 CTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATG
1 ATTTAATGATTTAA---TAAT-AATTACT-TTAATGA-TTTAATG
* * * *
769167 ATTTAATGATTTAATGAT--TTAATAATAATTATTTTAATG
1 ATTTAATGATTTAATAATAATTACT-TTAATGA-TTTAATG
* *
769206 ATTTAATGATTTAATGATTTAATGA-TTTAATGATTTAAT
1 ATTTAATGATTTAAT-A-ATAATTACTTTAATGATTTAAT
769245 AATAATTACT
Statistics
Matches: 727, Mismatches: 49, Indels: 126
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.00
30 5 0.01
31 55 0.08
32 8 0.01
33 9 0.01
34 5 0.01
35 4 0.01
36 25 0.03
37 116 0.16
38 12 0.02
39 356 0.49
40 35 0.05
41 31 0.04
42 12 0.02
43 3 0.00
44 5 0.01
45 18 0.02
46 6 0.01
47 19 0.03
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (39 bp):
ATTTAATGATTTAATAATAATTACTTTAATGATTTAATG
Found at i:771872 original size:172 final size:173
Alignment explanation
Indices: 771577--771935 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
771567 CATCAAATAT
*
771577 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
771642 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
771707 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* * *
771750 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
771814 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
771878 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
771922 AAAATGGTCCCTAA
1 AAAATGATCCCTAA
771936 AACTTTACAA
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 110 0.65
173 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:772414 original size:23 final size:23
Alignment explanation
Indices: 772388--772431 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
772378 AGTTGCATGC
772388 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
772411 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
772432 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:772476 original size:22 final size:22
Alignment explanation
Indices: 772448--772501 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
772438 AGGACCCAGG
772448 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
772470 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
772492 ACCCGTGATT
1 ACCCGTGATT
772502 CCCATCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:772920 original size:22 final size:22
Alignment explanation
Indices: 772895--772945 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
772885 TGATGGGAAT
*
772895 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
772917 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
772939 CACGGGT
1 CACGGGT
772946 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:772988 original size:23 final size:23
Alignment explanation
Indices: 772962--773035 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
772952 TCCTGCAAGG
*
772962 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGGC
772985 CTGCACGTCTGCATGTGGGGGGC
1 CTGCACGTCTGCATGTGGGGGGC
*
773008 ATGCACGTCTGCATGTGGGGGGC
1 CTGCACGTCTGCATGTGGGGGGC
*
773031 ATGCA
1 CTGCA
773036 ACTGTTGGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.23
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGGC
Found at i:773768 original size:172 final size:173
Alignment explanation
Indices: 773481--773839 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
773471 TTGTAAAGTT
* * * *
773481 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
773546 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
773609 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * * *
773653 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
* *
773718 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
773783 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
773826 TTAGGGATCATTTT
1 TTAGGGATCATTTT
773840 ATATTTGATG
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 109 0.64
173 60 0.35
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:775589 original size:6 final size:6
Alignment explanation
Indices: 775578--775602 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
775568 CAAGAAGGAC
775578 TGGGAG TGGGAG TGGGAG TGGGAG T
1 TGGGAG TGGGAG TGGGAG TGGGAG T
775603 TCTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
TGGGAG
Found at i:776196 original size:31 final size:31
Alignment explanation
Indices: 776149--776860 Score: 633
Period size: 31 Copynumber: 21.8 Consensus size: 31
776139 TTATTATTAA
776149 ATTATTAAA--ATTAAATCATTAAAATAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
776178 ATTATTAAATCATTAAATCA-T----TAA--
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776202 ATCATTAAATCATTAAATCATTAAAATAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776233 ATTATTAAATCATTAAATCATTAAAGTAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776264 ATTATTAAATCATTAAATTTAAATCATTAAAGTAATT
1 ATTATTAAATC-----A-TTAAATCATTAAAATAATT
*
776301 ATTATTAAATCATTAAATCATT-AAATCATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
* * * *
776331 AAATCATTAAATCATTAAAGTAATTATTATTAA--
1 --ATTATTAAATCATTAAA-TCATTA-AAATAATT
* *
776364 ATCATTAAATCATTAAATCATTAAAGTAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
776395 ATTATTAAATCATTAAATCATTAAATCATTAAAGTAATT
1 ATTATTAAATCATTAAATCA-T---T-A--AAA-TAATT
* *
776434 ATTATTAAATCATTAAATCATTTAAGTAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
* *
776465 ATTATTAAATTATTAAAATTAAATCATTAAAGTAATT
1 ATTATT-AA--A-T--CATTAAATCATTAAAATAATT
776502 ATTATTAAATCATTAAATCATTAAAATAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776533 ATTATTAAATCATTAAATCATTAAAGTAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776564 ATTATTAAATCATTAAAGTTAAATCATTAAAGTAATT
1 ATTATTAAATC-----A-TTAAATCATTAAAATAATT
* *
776601 ATTATTAAATCATTAAATAATT-AAATCATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
* * *
776631 AAATCATTAAATCATTAAATAATTAAAGTAATT
1 --ATTATTAAATCATTAAATCATTAAAATAATT
*
776664 ATTATTAAATCATTAAATCATTAAAGTAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
*
776695 ATTATTAAATCATTAAATCATT-AAATCATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
* *
776725 AAATCATTAAATCATTAAATCATTAAATCATTAAATC
1 --ATTATTAAATCATTAAATCATTAAA--A-T-AATT
* *
776762 ATTAAAGTAATTATTATTAAATCATTAAATCATTAAAGTAATT
1 ATT--ATTAA--ATCATTAAATCA-T---T-A--AAA-TAATT
776805 ATTATTAAATCATTAAATCATTAAAATAATT
1 ATTATTAAATCATTAAATCATTAAAATAATT
776836 ATTATTAAATCATTAAATCATTAAA
1 ATTATTAAATCATTAAATCATTAAA
776861 TCATTAAAGT
Statistics
Matches: 578, Mismatches: 42, Indels: 124
0.78 0.06 0.17
Matches are distributed among these distances:
24 19 0.03
25 1 0.00
26 3 0.01
29 16 0.03
30 24 0.04
31 256 0.44
32 68 0.12
33 13 0.02
34 3 0.01
35 10 0.02
36 6 0.01
37 91 0.16
38 4 0.01
39 47 0.08
40 1 0.00
41 4 0.01
43 7 0.01
44 3 0.01
46 2 0.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (31 bp):
ATTATTAAATCATTAAATCATTAAAATAATT
Found at i:776874 original size:39 final size:38
Alignment explanation
Indices: 776189--776965 Score: 602
Period size: 39 Copynumber: 20.4 Consensus size: 38
776179 TTATTAAATC
* *
776189 ATTAAATCATTAAATCATTAAATCATTAAATCATTA-A
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
* *
776226 AATAATTATTATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAA--ATCATTAAATCATTAAATCATTAAA-TAATTATT
776267 ATTAAATCATTAAAT--TTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAA-TAATTATT
*
776304 ATTAAATCATTAAATCATTAAATCATTAAATCATTAAATCATT
1 ATTAAATCATTAAATCATTAAATCATT-AA--A-T-AATTATT
* * * *
776347 AAAGTAATTATTATTAAATCATTAAATCATTAAATCATTA-A
1 --ATTAA--ATCATTAAATCATTAAATCATTAAATAATTATT
* * * *
776388 AGTAATTATTATTAAATCATTAAATCATTAAATCATTA-A
1 ATTAA--ATCATTAAATCATTAAATCATTAAATAATTATT
* * *
776427 AGTAATTATTATTAAATCATTAAATCATTTAAGTAATTATT
1 ATTAA--ATCATTAAATCATTAAATCA-TTAAATAATTATT
*
776468 ATTAAATTATTAAA--ATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAA-TAATTATT
776505 ATTAAATCATTAAATCA-T---T-A--AAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
*
776536 ATTAAATCATTAAATCA-T---T-A--AAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
*
776567 ATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAA-TAATTATT
* * *
776604 ATTAAATCATTAAATAATTAAATCATTAAATCATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAATAATT--ATT
* * * *
776644 ATTAAATAATTAAAGTAATTATTATTAAATCATTAAATCATTA-A
1 ATTAAATCA-T----TAA--ATCATTAAATCATTAAATAATTATT
* * * *
776688 AGTAATTATTATTAAATCATTAAATCATTAAATCATTAAATC
1 ATTAA--ATCATTAAATCATTAAATCATTAAATAATT--ATT
* *
776730 ATTAAATCATTAAATCATTAAATCATTAAATCATTA-A
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
* *
776767 AGTAATTATTATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAA--ATCATTAAATCATTAAATCATTAAA-TAATTATT
776808 ATTAAATCATTAAATCA-T---T-A--AAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
776839 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAA-TAATTATT
*
776878 ATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAA-TAATTATT
* *
776915 ATTAAATCATTAAA--GTTAAATCATTAAATCATTA-T
1 ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
*
776950 AGTTAAATAATTAAAT
1 A-TTAAATCATTAAAT
776966 TTAAATAATT
Statistics
Matches: 639, Mismatches: 44, Indels: 114
0.80 0.06 0.14
Matches are distributed among these distances:
30 1 0.00
31 77 0.12
32 7 0.01
33 1 0.00
34 3 0.00
35 5 0.01
36 24 0.04
37 147 0.23
38 10 0.02
39 210 0.33
40 60 0.09
41 17 0.03
42 9 0.01
43 7 0.01
44 5 0.01
45 9 0.01
46 5 0.01
47 42 0.07
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (38 bp):
ATTAAATCATTAAATCATTAAATCATTAAATAATTATT
Found at i:776882 original size:31 final size:31
Alignment explanation
Indices: 776406--776928 Score: 491
Period size: 31 Copynumber: 16.5 Consensus size: 31
776396 TTATTAAATC
776406 ATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
*
776437 ATTAAATCATTAAATCATTTAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
*
776468 ATTAAATTATTAAAATTAAATCATTAAAGTAATTATT
1 ATT-AA--A-T--CATTAAATCATTAAAGTAATTATT
*
776505 ATTAAATCATTAAATCATTAAAATAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
776536 ATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
776567 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
1 ATTAAATC-----A-TTAAATCATTAAAGTAATTATT
* * *
776604 ATTAAATCATTAAATAATTAAA-TCATTAAATC
1 ATTAAATCATTAAATCATTAAAGTAATT--ATT
*
776636 ATTAAATCATTAAATAATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
776667 ATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
*
776698 ATTAAATCATTAAATCA-T----TAA--ATC
1 ATTAAATCATTAAATCATTAAAGTAATTATT
* *
776722 ATTAAATCATTAAATCATTAAA-TCATTAAATC
1 ATTAAATCATTAAATCATTAAAGTAATT--ATT
* * * *
776754 ATTAAATCATTAAAGTAATTATTATTAA--ATC
1 ATTAAATCATTAAA-TCATTA-AAGTAATTATT
* * * *
776785 ATTAAATCATTAAAGTAATTATTATTAA--ATC
1 ATTAAATCATTAAA-TCATTA-AAGTAATTATT
* * * *
776816 ATTAAATCATTAAAATAATTATTATTAA--ATC
1 ATTAAATCATT-AAATCATTA-AAGTAATTATT
776847 ATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAAGTAATTATT
776878 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
1 ATTAAATC-----A-TTAAATCATTAAAGTAATTATT
776915 ATTAAATCATTAAA
1 ATTAAATCATTAAA
776929 GTTAAATCAT
Statistics
Matches: 436, Mismatches: 21, Indels: 70
0.83 0.04 0.13
Matches are distributed among these distances:
24 19 0.04
25 1 0.00
26 3 0.01
28 2 0.00
29 4 0.01
30 13 0.03
31 241 0.55
32 48 0.11
33 10 0.02
34 3 0.01
35 3 0.01
36 4 0.01
37 85 0.19
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (31 bp):
ATTAAATCATTAAATCATTAAAGTAATTATT
Found at i:776962 original size:14 final size:13
Alignment explanation
Indices: 776937--776986 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
776927 AAGTTAAATC
*
776937 ATTAAATCATTAT
1 ATTAAATAATTAT
*
776950 AGTTAAATAATTAA
1 A-TTAAATAATTAT
776964 ATTTAAATAATTATT
1 A-TTAAATAATTA-T
776979 ATTAAATA
1 ATTAAATA
776987 TGTACTCGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTAAATAATTAT
Found at i:776965 original size:8 final size:8
Alignment explanation
Indices: 776102--776948 Score: 690
Period size: 8 Copynumber: 110.5 Consensus size: 8
776092 AGTAATTATT
776102 ATTAAATC
1 ATTAAATC
776110 ATTAAA--
1 ATTAAATC
776116 ATTAAATC
1 ATTAAATC
776124 ATTAAA--
1 ATTAAATC
* *
776130 ATTAAGTA
1 ATTAAATC
*
776138 ATT--ATT
1 ATTAAATC
*
776144 ATTAAATT
1 ATTAAATC
776152 ATTAAA--
1 ATTAAATC
776158 ATTAAATC
1 ATTAAATC
*
776166 ATTAAAATA
1 ATT-AAATC
*
776175 ATT--ATT
1 ATTAAATC
776181 ATTAAATC
1 ATTAAATC
776189 ATTAAATC
1 ATTAAATC
776197 ATTAAATC
1 ATTAAATC
776205 ATTAAATC
1 ATTAAATC
776213 ATTAAATC
1 ATTAAATC
*
776221 ATTAAAATA
1 ATT-AAATC
*
776230 ATT--ATT
1 ATTAAATC
776236 ATTAAATC
1 ATTAAATC
776244 ATTAAATC
1 ATTAAATC
*
776252 ATTAAAGTA
1 ATTAAA-TC
*
776261 ATT--ATT
1 ATTAAATC
776267 ATTAAATC
1 ATTAAATC
776275 ATTAAAT-
1 ATTAAATC
776282 -TTAAATC
1 ATTAAATC
*
776289 ATTAAAGTA
1 ATTAAA-TC
*
776298 ATT--ATT
1 ATTAAATC
776304 ATTAAATC
1 ATTAAATC
776312 ATTAAATC
1 ATTAAATC
776320 ATTAAATC
1 ATTAAATC
776328 ATTAAATC
1 ATTAAATC
776336 ATTAAATC
1 ATTAAATC
*
776344 ATTAAAGTA
1 ATTAAA-TC
*
776353 ATT--ATT
1 ATTAAATC
776359 ATTAAATC
1 ATTAAATC
776367 ATTAAATC
1 ATTAAATC
776375 ATTAAATC
1 ATTAAATC
*
776383 ATTAAAGTA
1 ATTAAA-TC
*
776392 ATT--ATT
1 ATTAAATC
776398 ATTAAATC
1 ATTAAATC
776406 ATTAAATC
1 ATTAAATC
776414 ATTAAATC
1 ATTAAATC
*
776422 ATTAAAGTA
1 ATTAAA-TC
*
776431 ATT--ATT
1 ATTAAATC
776437 ATTAAATC
1 ATTAAATC
776445 ATTAAATC
1 ATTAAATC
* *
776453 ATTTAAGTA
1 A-TTAAATC
*
776462 ATT--ATT
1 ATTAAATC
*
776468 ATTAAATT
1 ATTAAATC
776476 ATTAAA--
1 ATTAAATC
776482 ATTAAATC
1 ATTAAATC
*
776490 ATTAAAGTA
1 ATTAAA-TC
*
776499 ATT--ATT
1 ATTAAATC
776505 ATTAAATC
1 ATTAAATC
776513 ATTAAATC
1 ATTAAATC
*
776521 ATTAAAATA
1 ATT-AAATC
*
776530 ATT--ATT
1 ATTAAATC
776536 ATTAAATC
1 ATTAAATC
776544 ATTAAATC
1 ATTAAATC
*
776552 ATTAAAGTA
1 ATTAAA-TC
*
776561 ATT--ATT
1 ATTAAATC
776567 ATTAAATC
1 ATTAAATC
776575 ATTAAA--
1 ATTAAATC
*
776581 GTTAAATC
1 ATTAAATC
*
776589 ATTAAAGTA
1 ATTAAA-TC
*
776598 ATT--ATT
1 ATTAAATC
776604 ATTAAATC
1 ATTAAATC
*
776612 ATTAAATA
1 ATTAAATC
776620 ATTAAATC
1 ATTAAATC
776628 ATTAAATC
1 ATTAAATC
776636 ATTAAATC
1 ATTAAATC
*
776644 ATTAAATA
1 ATTAAATC
*
776652 ATTAAAGTA
1 ATTAAA-TC
*
776661 ATT--ATT
1 ATTAAATC
776667 ATTAAATC
1 ATTAAATC
776675 ATTAAATC
1 ATTAAATC
*
776683 ATTAAAGTA
1 ATTAAA-TC
*
776692 ATT--ATT
1 ATTAAATC
776698 ATTAAATC
1 ATTAAATC
776706 ATTAAATC
1 ATTAAATC
776714 ATTAAATC
1 ATTAAATC
776722 ATTAAATC
1 ATTAAATC
776730 ATTAAATC
1 ATTAAATC
776738 ATTAAATC
1 ATTAAATC
776746 ATTAAATC
1 ATTAAATC
776754 ATTAAATC
1 ATTAAATC
*
776762 ATTAAAGTA
1 ATTAAA-TC
*
776771 ATT--ATT
1 ATTAAATC
776777 ATTAAATC
1 ATTAAATC
776785 ATTAAATC
1 ATTAAATC
*
776793 ATTAAAGTA
1 ATTAAA-TC
*
776802 ATT--ATT
1 ATTAAATC
776808 ATTAAATC
1 ATTAAATC
776816 ATTAAATC
1 ATTAAATC
*
776824 ATTAAAATA
1 ATT-AAATC
*
776833 ATT--ATT
1 ATTAAATC
776839 ATTAAATC
1 ATTAAATC
776847 ATTAAATC
1 ATTAAATC
776855 ATTAAATC
1 ATTAAATC
*
776863 ATTAAAGTA
1 ATTAAA-TC
*
776872 ATT--ATT
1 ATTAAATC
776878 ATTAAATC
1 ATTAAATC
776886 ATTAAA--
1 ATTAAATC
*
776892 GTTAAATC
1 ATTAAATC
*
776900 ATTAAAGTA
1 ATTAAA-TC
*
776909 ATT--ATT
1 ATTAAATC
776915 ATTAAATC
1 ATTAAATC
776923 ATTAAA--
1 ATTAAATC
*
776929 GTTAAATC
1 ATTAAATC
776937 ATTAAATC
1 ATTAAATC
776945 ATTA
1 ATTA
776949 TAGTTAAATA
Statistics
Matches: 695, Mismatches: 69, Indels: 150
0.76 0.08 0.16
Matches are distributed among these distances:
6 128 0.18
7 14 0.02
8 462 0.66
9 91 0.13
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (8 bp):
ATTAAATC
Found at i:778997 original size:43 final size:43
Alignment explanation
Indices: 778950--779087 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
778940 GACGACAGGT
778950 GAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCA
1 GAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCA
* * ** *
778993 GAAGACGCCGAGATATCC-CAC-AGGC---CAAT-T-GC-T--T
1 GAAGACGCCGAGAGATCCAC-CTTGGCATTCCTTGTAGCATGCA
779027 GAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCA
1 GAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCA
*
779070 GAAGACGCCGAGATATCC
1 GAAGACGCCGAGAGATCC
779088 CACAGGCCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
34 18 0.25
35 4 0.05
36 1 0.01
37 2 0.03
38 3 0.04
39 3 0.04
40 2 0.03
41 1 0.01
42 4 0.05
43 35 0.48
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (43 bp):
GAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCA
Found at i:779036 original size:34 final size:34
Alignment explanation
Indices: 778993--779123 Score: 104
Period size: 34 Copynumber: 3.6 Consensus size: 34
778983 GTAGCATGCA
778993 GAAGACGCCGAGATATCCCACAGGCCAATTGCTT
1 GAAGACGCCGAGATATCCCACAGGCCAATTGCTT
* * ** *
779027 GAAGACGCCGAGAGAT-CCACCTTGGCATTCCTTGTAGCATGCA
1 GAAGACGCCGAGATATCCCA-C-AGGC---CAAT-T-GC-T--T
779070 GAAGACGCCGAGATATCCCACAGGCCAATTGCTT
1 GAAGACGCCGAGATATCCCACAGGCCAATTGCTT
779104 GAAGACGCCGAGCAT-TCCCA
1 GAAGACGCCGAG-ATATCCCA
779124 TAGTTTCATA
Statistics
Matches: 75, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
33 3 0.04
34 33 0.44
35 5 0.07
36 1 0.01
37 2 0.03
38 3 0.04
39 3 0.04
40 2 0.03
41 1 0.01
42 3 0.04
43 16 0.21
44 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (34 bp):
GAAGACGCCGAGATATCCCACAGGCCAATTGCTT
Found at i:779076 original size:77 final size:77
Alignment explanation
Indices: 778949--779115 Score: 334
Period size: 77 Copynumber: 2.2 Consensus size: 77
778939 AGACGACAGG
778949 TGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCGAGATATCCCAC
1 TGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCGAGATATCCCAC
779014 AGGCCAATTGCT
66 AGGCCAATTGCT
779026 TGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCGAGATATCCCAC
1 TGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCGAGATATCCCAC
779091 AGGCCAATTGCT
66 AGGCCAATTGCT
779103 TGAAGACGCCGAG
1 TGAAGACGCCGAG
779116 CATTCCCATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (77 bp):
TGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCGAGATATCCCAC
AGGCCAATTGCT
Found at i:780272 original size:20 final size:20
Alignment explanation
Indices: 780247--780285 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
780237 GATTAAATTT
*
780247 AAGTCCAAAATTCGAAAAAG
1 AAGTCCAAAACTCGAAAAAG
780267 AAGTCCAAAACTCGAAAAA
1 AAGTCCAAAACTCGAAAAA
780286 ATTCAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.18, G:0.13, T:0.13
Consensus pattern (20 bp):
AAGTCCAAAACTCGAAAAAG
Found at i:780454 original size:23 final size:22
Alignment explanation
Indices: 780431--780474 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
780421 TTGAAAGTCA
780431 AAATTTTCAACTGGGTTGGTTC
1 AAATTTTCAACTGGGTTGGTTC
*
780453 AATTTTTCAACTGGGTTGGTTC
1 AAATTTTCAACTGGGTTGGTTC
780475 CGAGAACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (22 bp):
AAATTTTCAACTGGGTTGGTTC
Found at i:780854 original size:59 final size:59
Alignment explanation
Indices: 780741--780855 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
780731 TTTGGGGACT
* * * *
780741 AATTTAGAATAAGGGTCATAGTTTGAGGGTGAATTTGAAATATTCAAAAGTTTAGGATC
1 AATTTAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATATTCAAAAGTTTAGGATC
* *
780800 AATTTAGAATGAGAGTCATAGTTT-AGGAATGAAATTAAAATGTTCGAAAA-TTTAGG
1 AATTTAGAATAAGAGTCATAGTTTGAGG-ATGAAATTAAAATATTC-AAAAGTTTAGG
780856 GACTAGTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.06
59 41 0.85
60 4 0.08
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (59 bp):
AATTTAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATATTCAAAAGTTTAGGATC
Found at i:782212 original size:15 final size:16
Alignment explanation
Indices: 782192--782221 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
782182 AAAATAATTA
782192 TTAATTAAT-ATTTAG
1 TTAATTAATGATTTAG
782207 TTAATTAATGATTTA
1 TTAATTAATGATTTA
782222 ATTTGCAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTAATTAATGATTTAG
Found at i:782942 original size:4 final size:4
Alignment explanation
Indices: 782933--782980 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
782923 GTTATTTTGT
* * * * *
782933 TATA TATA TATA TATA TATA TATA TGTA TGTA TGTA TGTA TGTA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
782981 GTAATATAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:783036 original size:37 final size:35
Alignment explanation
Indices: 782984--783404 Score: 171
Period size: 38 Copynumber: 12.1 Consensus size: 35
782974 GTATATAGTA
782984 ATATAGTTTGT-GAAAATGTTTTTGACAAAATATAAT
1 ATATAGTTT-TAGAAAATGTTTTTGA-AAAATATAAT
* * *
783020 ATATAATTTTCAGAAAATGATTTTCGAAAATTTATATATT
1 ATATAGTTTT-AGAAAATG-TTTTTGAAAA---ATATAAT
* *
783060 ATATAGTTTTTGAAAATATTTTT--AAAATATAAT
1 ATATAGTTTTAGAAAATGTTTTTGAAAAATATAAT
** *
783093 ATATAGTTTT-GAAAA--CATTT-----ATATATT
1 ATATAGTTTTAGAAAATGTTTTTGAAAAATATAAT
* * ** *
783120 GTATAGTTTT-TAAAA-CATTTTGAAAACTTATATAGT
1 ATATAGTTTTAGAAAATGTTTTTGAAAA---ATATAAT
* **
783156 ATATAGTTTT-TAAAACATTTTT--AAAATATAAT
1 ATATAGTTTTAGAAAATGTTTTTGAAAAATATAAT
*
783188 ATATAGTTTTA-AAAATATTTTTTGAGAAATTATATAAT
1 ATATAGTTTTAGAAAAT-GTTTTTGA-AAA--ATATAAT
*
783226 ATATAGTTTTAAAAACAT-TTTTTGAGAAATTATATAAT
1 ATATAGTTTTAGAAA-ATGTTTTTGA-AAA--ATATAAT
* *
783264 ATATAGTTTTAAAAACAT-TTTTTGAAAACT-T-AT
1 ATATAGTTTTAGAAA-ATGTTTTTGAAAAATATAAT
* * *
783297 ATAATA-TTTT-TAAAAT-ATTTTGAAAACTATATAAC
1 AT-ATAGTTTTAGAAAATGTTTTTGAAAA--ATATAAT
783332 ATATAGTTTT-GAAAACT-TTTTT--AAAATATAAT
1 ATATAGTTTTAGAAAA-TGTTTTTGAAAAATATAAT
* * * *
783364 ATATAGTTTAAAAAAAT-ATTTTGAAATATATATATT
1 ATATAGTTTTAGAAAATGTTTTTGAAA-A-ATATAAT
783400 ATATA
1 ATATA
783405 AATTATATTT
Statistics
Matches: 314, Mismatches: 34, Indels: 74
0.74 0.08 0.18
Matches are distributed among these distances:
27 19 0.06
28 3 0.01
30 3 0.01
31 11 0.04
32 48 0.15
33 34 0.11
34 13 0.04
35 17 0.05
36 50 0.16
37 17 0.05
38 73 0.23
39 9 0.03
40 17 0.05
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (35 bp):
ATATAGTTTTAGAAAATGTTTTTGAAAAATATAAT
Found at i:783116 original size:27 final size:27
Alignment explanation
Indices: 783049--783139 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 27
783039 ATTTTCGAAA
*
783049 ATTTATATATTATATAGTTTTTGAAAAT
1 ATTTATATATTATATAG-TTTTGAAAAC
*
783077 ATTTTTAAAATATAATATATAGTTTTGAAAAC
1 A--TTT---ATATATTATATAGTTTTGAAAAC
* *
783109 ATTTATATATTGTATAGTTTTTAAAAC
1 ATTTATATATTATATAGTTTTGAAAAC
783136 ATTT
1 ATTT
783140 TGAAAACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 24 0.45
28 1 0.02
30 6 0.11
32 10 0.19
33 12 0.23
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (27 bp):
ATTTATATATTATATAGTTTTGAAAAC
Found at i:783161 original size:36 final size:33
Alignment explanation
Indices: 783112--783404 Score: 236
Period size: 38 Copynumber: 8.4 Consensus size: 33
783102 TGAAAACATT
* *
783112 TATATATTGTATAGTTTTTAAAACATTTTGAAAA
1 TATATA-TATATAGTTTTAAAAACATTTTGAAAA
* *
783146 CTTATATAGTATATAGTTTTTAAAACATTTTTAAAA
1 --TATATA-TATATAGTTTTAAAAACATTTTGAAAA
*
783182 TATA-ATATATAGTTTTAAAAATATTTTTTGAGAAA
1 TATATATATATAGTTTTAAAAACA--TTTTGA-AAA
783217 TTATATAATATATAGTTTTAAAAACATTTTTTGAGAAA
1 -TATAT-ATATATAGTTTTAAAAACA--TTTTGA-AAA
783255 TTATATAATATATAGTTTTAAAAACATTTTTTGAAAA
1 -TATAT-ATATATAGTTTTAAAAACA--TTTTGAAAA
* *
783292 CT-TATATA-ATA-TTTTTAAAATATTTTGAAAA
1 -TATATATATATAGTTTTAAAAACATTTTGAAAA
* * * *
783323 CTATATAACATATAGTTTTGAAAACTTTTTTAAAA
1 -TATAT-ATATATAGTTTTAAAAACATTTTGAAAA
* *
783358 TATA-ATATATAGTTTAAAAAAATATTTTGAAATA
1 TATATATATATAGTTT-TAAAAACATTTTGAAA-A
783392 TATATATTATATA
1 TATATA-TATATA
783405 AATTATATTT
Statistics
Matches: 222, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.05
32 29 0.13
33 23 0.10
34 24 0.11
35 23 0.10
36 44 0.20
37 4 0.02
38 64 0.29
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (33 bp):
TATATATATATAGTTTTAAAAACATTTTGAAAA
Found at i:783228 original size:68 final size:68
Alignment explanation
Indices: 783053--783398 Score: 266
Period size: 68 Copynumber: 5.2 Consensus size: 68
783043 TCGAAAATTT
* ** *
783053 ATATATTATATAGTTTTTGAAA-ATATTTTT-AAAA-TATA-ATATATAGTTTTGAAAACA--TT
1 ATATAATATATAGTTTTAAAAACAT-TTTTTGAAAATTATATATATATAGTTTTAAAAACATTTT
783112 T---
65 TAAA
* * * *
783113 ATATATTGTATAGTTTTTAAAACA--TTTTGAAAACTTATATAGTATATAGTTTTTAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTTTGAAAA-TTATATA-TATATAGTTTTAAAAACATTT
783176 TTAAA
64 TTAAA
*
783181 ATATAATATATAGTTTTAAAAATATTTTTTGAGAAATTATATAATATATAGTTTTAAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTTTGA-AAATTATAT-ATATATAGTTTTAAAAACA-TT
783246 TTTGAGAAA
63 TTT---AAA
*
783255 TTATATAATATATAGTTTTAAAAACATTTTTTGAAAACTTATATA-ATAT--TTTT-AAAATATT
1 --ATATAATATATAGTTTTAAAAACATTTTTTGAAAA-TTATATATATATAGTTTTAAAAACATT
*
783316 TTGAAAA
63 TT-TAAA
* * *
783323 CTATATAACATATAGTTTTGAAAAC-TTTTTT-AAAA-TATA-ATATATAG-TTTAAAAAAATAT
1 --ATATAATATATAGTTTTAAAAACATTTTTTGAAAATTATATATATATAGTTTTAAAAACAT-T
*
783383 TTTGAA
63 TTTAAA
783389 ATAT-ATATAT
1 ATATAATATAT
783399 TATATAAATT
Statistics
Matches: 240, Mismatches: 18, Indels: 53
0.77 0.06 0.17
Matches are distributed among these distances:
58 4 0.02
59 4 0.02
60 20 0.08
61 5 0.02
62 1 0.00
63 23 0.10
64 12 0.05
65 6 0.03
66 12 0.05
67 9 0.04
68 45 0.19
70 33 0.14
71 14 0.06
72 4 0.02
74 7 0.03
75 4 0.02
76 37 0.15
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (68 bp):
ATATAATATATAGTTTTAAAAACATTTTTTGAAAATTATATATATATAGTTTTAAAAACATTTTT
AAA
Found at i:783427 original size:3 final size:3
Alignment explanation
Indices: 783419--783463 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
783409 ATATTTAGTA
783419 TAT TAT TAT TAT TAT TAT TAT T-T TATT TATT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
783463 T
1 T
783464 TCATTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 25 0.66
4 7 0.18
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:783448 original size:18 final size:18
Alignment explanation
Indices: 783427--783473 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
783417 TATATTATTA
783427 TTATTATTATTATTTTAT
1 TTATTATTATTATTTTAT
783445 TTATTTATT-TTATTTTAT
1 TTA-TTATTATTATTTTAT
783463 TTCATT-TTATT
1 TT-ATTATTATT
783474 TTTCTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 18 0.69
19 6 0.23
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTATTATTATTTTAT
Found at i:784639 original size:4 final size:4
Alignment explanation
Indices: 784630--784734 Score: 56
Period size: 4 Copynumber: 25.5 Consensus size: 4
784620 ATCATTTTCT
* *
784630 TTTA TTTA TTT- TCTTT TTTA TTTTA TTTC TTTAA TTTA TTT- TTTA TTTTA
1 TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTT-A TTTA TTTA TTTA -TTTA
* * * * *
784680 TATA TTTA TTTA TTTTA TTTCT TTTT TTTA TTTGA TTCA -TT- TTTA TATA
1 TTTA TTTA TTTA -TTTA TTT-A TTTA TTTA TTT-A TTTA TTTA TTTA TTTA
784729 TTTA TT
1 TTTA TT
784735 ATTATTATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
3 7 0.09
4 50 0.63
5 22 0.28
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:784671 original size:25 final size:25
Alignment explanation
Indices: 784632--784695 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
784622 CATTTTCTTT
* * *
784632 TATTTATTTTCTTTTTTATTTTATT
1 TATTTAATTTATTTTTTATTTTATA
*
784657 TCTTTAATTTATTTTTTATTTTATA
1 TATTTAATTTATTTTTTATTTTATA
784682 TATTT-ATTTATTTT
1 TATTTAATTTATTTT
784696 ATTTCTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (25 bp):
TATTTAATTTATTTTTTATTTTATA
Found at i:784680 original size:42 final size:41
Alignment explanation
Indices: 784646--784743 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 41
784636 TATTTTCTTT
784646 TTTATTTTATTTCTTTAATTTATTTTTTATTTTATATATTTA
1 TTTATTTTATTTCTTTAATTTATTTTTTA-TTTATATATTTA
** *
784688 TTTATTTTATTTCTTTTTTTTATTTGATTCATTTTTATATATTTA
1 TTTATTTTATTTCTTTAATTTATTT--TT--TATTTATATATTTA
784733 -TTATTATTATT
1 TTTATT-TTATT
784744 ATATATTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
42 23 0.48
44 7 0.15
45 17 0.35
46 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (41 bp):
TTTATTTTATTTCTTTAATTTATTTTTTATTTATATATTTA
Found at i:784698 original size:13 final size:13
Alignment explanation
Indices: 784630--784712 Score: 82
Period size: 13 Copynumber: 6.5 Consensus size: 13
784620 ATCATTTTCT
*
784630 TTTATTTATTTTC
1 TTTATTTATTTTA
784643 TTT-TTTATTTTA
1 TTTATTTATTTTA
* *
784655 TTTCTTTAATTTA
1 TTTATTTATTTTA
784668 TTT-TTTATTTTA
1 TTTATTTATTTTA
*
784680 TATATTTA-TTTA
1 TTTATTTATTTTA
* *
784692 TTTTATTTCTTTTT
1 -TTTATTTATTTTA
784706 TTTATTT
1 TTTATTT
784713 GATTCATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
12 25 0.42
13 31 0.53
14 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:784742 original size:17 final size:16
Alignment explanation
Indices: 784666--784761 Score: 51
Period size: 17 Copynumber: 5.9 Consensus size: 16
784656 TTCTTTAATT
*
784666 TATTTTTTATTTTATA
1 TATTTATTATTTTATA
784682 TATTTATTTATTTTAT-
1 TATTTA-TTATTTTATA
*
784698 T-TCT-TT-TTTT-TA
1 TATTTATTATTTTATA
*
784710 T-TTGATTCATTTTTATA
1 TATTTATT-A-TTTTATA
784727 TATTTATTATTATTATTA
1 TATTTATTATT-TTA-TA
*
784745 TATATTTTTCATTTTAT
1 TAT-TTATT-ATTTTAT
784762 GTTTGTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
11 1 0.02
12 6 0.10
13 4 0.06
15 2 0.03
16 12 0.19
17 16 0.26
18 11 0.18
19 7 0.11
20 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (16 bp):
TATTTATTATTTTATA
Found at i:788532 original size:21 final size:21
Alignment explanation
Indices: 788506--788557 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
788496 TGAGAGGCGT
788506 TAAACTACAAAAACATTAGGG
1 TAAACTACAAAAACATTAGGG
788527 TAAACTACAAAAACATTAGGG
1 TAAACTACAAAAACATTAGGG
788548 TAAACTACAA
1 TAAACTACAA
788558 GTTTAGTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (21 bp):
TAAACTACAAAAACATTAGGG
Found at i:790262 original size:13 final size:13
Alignment explanation
Indices: 790244--790276 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
790234 TTTGTATTAA
790244 TTATTTTATTATT
1 TTATTTTATTATT
*
790257 TTATTTAATTATT
1 TTATTTTATTATT
790270 TTATTTT
1 TTATTTT
790277 TTTACAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:790264 original size:21 final size:22
Alignment explanation
Indices: 790231--790280 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
790221 AATTTAATCA
*
790231 TATTTTGTATTAATTATTTTAT
1 TATTTTATATTAATTATTTTAT
790253 TATTTTAT-TTAATTATTTTAT
1 TATTTTATATTAATTATTTTAT
*
790274 TTTTTTA
1 TATTTTA
790281 CAGTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TATTTTATATTAATTATTTTAT
Found at i:790548 original size:8 final size:8
Alignment explanation
Indices: 790537--790574 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
790527 AAAAAAAATA
790537 AAATAATT
1 AAATAATT
790545 AAATAATT
1 AAATAATT
790553 AAATAA-T
1 AAATAATT
790560 ACAATAATT
1 A-AATAATT
790569 AAATAA
1 AAATAA
790575 AATATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.07
8 24 0.86
9 2 0.07
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (8 bp):
AAATAATT
Found at i:790589 original size:24 final size:23
Alignment explanation
Indices: 790536--790589 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
790526 CAAAAAAAAT
*
790536 AAAATAATTAAATAATTAAATAAT
1 AAAATAATTAAATAA-TAAATAAA
*
790560 ACAATAATTAAATAA-AATATTAAA
1 AAAATAATTAAATAATAA-A-TAAA
790584 AAAATA
1 AAAATA
790590 TGATTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 1 0.04
24 22 0.88
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAATTAAATAATAAATAAA
Found at i:792605 original size:21 final size:21
Alignment explanation
Indices: 792498--792604 Score: 187
Period size: 21 Copynumber: 5.1 Consensus size: 21
792488 AGAGAAAAAT
*
792498 AACTTCGACTATCGCAATGCG
1 AACTTGGACTATCGCAATGCG
792519 AACTTGGACTATCGCAATGCG
1 AACTTGGACTATCGCAATGCG
*
792540 AACTTGAACTATCGCAATGCG
1 AACTTGGACTATCGCAATGCG
792561 AACTTGGACTATCGCAATGCG
1 AACTTGGACTATCGCAATGCG
*
792582 AATTTGGACTATCGCAATGCG
1 AACTTGGACTATCGCAATGCG
792603 AA
1 AA
792605 TATGTAAATC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
AACTTGGACTATCGCAATGCG
Found at i:792617 original size:20 final size:21
Alignment explanation
Indices: 792508--792623 Score: 114
Period size: 21 Copynumber: 5.6 Consensus size: 21
792498 AACTTCGACT
*
792508 ATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGGACA
* *
792529 ATCGCAATGCGAACT-TGAACT
1 ATCGCAATGCGAA-TATGGACA
*
792550 ATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGGACA
* *
792571 ATCGCAATGCGAATTTGGACT
1 ATCGCAATGCGAATATGGACA
*
792592 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATGGACA
792612 ATCGCAATGCGA
1 ATCGCAATGCGA
792624 TAGTCGAAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
20 13 0.15
21 76 0.85
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAATATGGACA
Found at i:792701 original size:23 final size:21
Alignment explanation
Indices: 792613--792722 Score: 107
Period size: 21 Copynumber: 5.2 Consensus size: 21
792603 AATATGTAAA
* * *
792613 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
*
792634 TCGCATTGTGATAGTCCAAAT
1 TCGCATTGCGATAGTCCAAAT
*
792655 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
792676 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAAT
* *
792699 TCG--TTGCAATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAT
792718 TCGCA
1 TCGCA
792723 ACGACTGGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 11 0.15
21 51 0.70
23 11 0.15
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:792815 original size:6 final size:6
Alignment explanation
Indices: 792805--792871 Score: 93
Period size: 6 Copynumber: 11.5 Consensus size: 6
792795 GACAGGTATT
* * *
792805 ACCACT ACCACG ACGACA ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
792853 ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
792872 CGAGACGAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
5 10 0.18
6 46 0.82
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:797892 original size:21 final size:20
Alignment explanation
Indices: 797806--797962 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
797796 AAATGACCAA
**
797806 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
797825 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
797845 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
797865 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
797886 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
797906 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
797926 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
797947 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
797963 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:797915 original size:41 final size:41
Alignment explanation
Indices: 797806--797962 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
797796 AAATGACCAA
* **
797806 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
797845 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
797886 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
797927 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
797963 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:798022 original size:20 final size:20
Alignment explanation
Indices: 797929--798138 Score: 192
Period size: 20 Copynumber: 10.5 Consensus size: 20
797919 CGATTTTCCA
* ** *
797929 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
797949 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
797969 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
797989 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
798009 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTATCCGT
*
798029 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
798049 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
798069 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
798089 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
798109 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
798129 AAATCACAAC
1 AAATCGCAAC
798139 ACTGAAATTT
Statistics
Matches: 156, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 152 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:798860 original size:24 final size:24
Alignment explanation
Indices: 798821--798867 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
798811 AAATTTGGTC
798821 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
798845 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
798868 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:799059 original size:12 final size:12
Alignment explanation
Indices: 799042--799066 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
799032 ATATAATCCT
799042 GAAGAAGAAAAA
1 GAAGAAGAAAAA
799054 GAAGAAGAAAAA
1 GAAGAAGAAAAA
799066 G
1 G
799067 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:801273 original size:19 final size:19
Alignment explanation
Indices: 801251--801467 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
801241 CGGAAATTAC
*
801251 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
801270 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
801284 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
801303 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
801317 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
801336 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
801355 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
801369 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
801388 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
801408 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
801422 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
801441 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
801460 AATCGCAA
1 AATCGCAA
801468 CGAGAGAATC
Statistics
Matches: 169, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 42 0.25
15 3 0.02
16 7 0.04
17 6 0.04
18 4 0.02
19 91 0.54
20 16 0.09
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:801297 original size:33 final size:34
Alignment explanation
Indices: 801251--801467 Score: 216
Period size: 33 Copynumber: 6.2 Consensus size: 34
801241 CGGAAATTAC
* *
801251 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
801284 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
801317 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
801355 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
801388 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
801422 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
801460 AATCGCAA
1 AATCGCAA
801468 CGAGAGAATC
Statistics
Matches: 159, Mismatches: 8, Indels: 29
0.81 0.04 0.15
Matches are distributed among these distances:
33 100 0.63
34 15 0.09
35 6 0.04
36 3 0.02
37 4 0.03
38 21 0.13
39 10 0.06
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:801311 original size:52 final size:52
Alignment explanation
Indices: 801279--801489 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
801269 AAATCCCAAC
801279 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801331 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801383 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801436 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801488 AT
1 AT
801490 TATAAACGCA
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
52 106 0.67
53 52 0.33
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:801478 original size:33 final size:34
Alignment explanation
Indices: 801336--801489 Score: 158
Period size: 33 Copynumber: 4.5 Consensus size: 34
801326 GCGAAATGAA
801336 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAGAG
801369 AATCGCAATGCGAAATGAAAATCGCAATGCG-GA-
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAGAG
* * * *
801402 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA-GCG--A-GAG
801441 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAGAG
801474 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
801490 TATAAACGCA
Statistics
Matches: 102, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
32 7 0.07
33 52 0.51
34 15 0.15
35 2 0.02
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAGAG
Found at i:801505 original size:105 final size:105
Alignment explanation
Indices: 801279--801489 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 105
801269 AAATCCCAAC
801279 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
801343 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
66 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801383 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
801448 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
66 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
801488 AT
1 AT
801490 TATAAACGCA
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 16 0.15
105 90 0.85
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (105 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:801554 original size:19 final size:19
Alignment explanation
Indices: 801514--801610 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
801504 GGTTCTCTCG
801514 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
801534 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
801553 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
801567 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
801585 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
801604 TTGCGAT
1 TTGCGAT
801611 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.09
19 29 0.41
20 15 0.21
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:801606 original size:51 final size:53
Alignment explanation
Indices: 801496--801610 Score: 207
Period size: 51 Copynumber: 2.2 Consensus size: 53
801486 AAATTATAAA
*
801496 CGCATTGCGGTTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
801549 CGCATTGCGATTCTCTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
801600 CGCATTGCGAT
1 CGCATTGCGAT
801611 AGTCATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 30 0.49
52 8 0.13
53 23 0.38
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.43
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:801736 original size:14 final size:14
Alignment explanation
Indices: 801717--801753 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
801707 CATCAATTAC
801717 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
801731 ACAAATCATCTTTT
1 ACAAATCAACTTTT
801745 ACAAATCAA
1 ACAAATCAA
801754 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:803756 original size:14 final size:14
Alignment explanation
Indices: 803737--803793 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
803727 GCGAAATGAA
*
803737 AATCGCAACGACAG
1 AATCGCAACGAAAG
803751 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
803768 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
803784 AATCGCAACG
1 AATCGCAACG
803794 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:803764 original size:33 final size:33
Alignment explanation
Indices: 803718--803810 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
803708 GCGAAACCAA
* *
803718 AATCGCAGCGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
803751 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
803784 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
803811 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:803775 original size:19 final size:19
Alignment explanation
Indices: 803681--803815 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
803671 TAGTTTACTT
* *
803681 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
803701 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
803720 TCGCAGCGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
803739 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
803753 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
803772 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
803786 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
803805 TCGCAATGCGA
1 TCGCAACGCGA
803816 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 45 0.47
20 12 0.13
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Done.