Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 23
Found at i:3515273 original size:21 final size:20
Alignment explanation
Indices: 3515234--3515273 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3515224 TTTAAAATTT
*
3515234 CATAAAATTTTCATCTCTAA
1 CATAAAATTTACATCTCTAA
*
3515254 CATAAAATCTTACGTCTCTA
1 CATAAAAT-TTACATCTCTA
3515274 CCAATCATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAAAATTTACATCTCTAA
Found at i:3524162 original size:15 final size:16
Alignment explanation
Indices: 3524134--3524163 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3524124 TGGTAAGTCA
3524134 TTTATTTCTTTTTATT
1 TTTATTTCTTTTTATT
3524150 TTTATTT-TTTTTAT
1 TTTATTTCTTTTTAT
3524164 CGATGACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTCTTTTTATT
Found at i:3525018 original size:12 final size:12
Alignment explanation
Indices: 3525001--3525028 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3524991 TTCTATTCTC
3525001 TTTTTTGTATGT
1 TTTTTTGTATGT
3525013 TTTTTTGTATGT
1 TTTTTTGTATGT
3525025 TTTT
1 TTTT
3525029 GAATTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (12 bp):
TTTTTTGTATGT
Found at i:3525523 original size:22 final size:21
Alignment explanation
Indices: 3525482--3525525 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3525472 CTTTGTTTTG
*
3525482 TTGAAAAATGCCCAAGTTACA
1 TTGAAAAATGCCCAACTTACA
*
3525503 TTGAAAAATGCTCTAACTTACA
1 TTGAAAAATGC-CCAACTTACA
3525525 T
1 T
3525526 AGATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (21 bp):
TTGAAAAATGCCCAACTTACA
Found at i:3526927 original size:18 final size:18
Alignment explanation
Indices: 3526888--3526929 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3526878 GATATTATCG
*
3526888 AATTATTATTTTATAGTC
1 AATTATTATTTTATAGTA
*
3526906 AATTATTTTATTTATA-TA
1 AATTATTAT-TTTATAGTA
3526924 AATTAT
1 AATTAT
3526930 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTATTATTTTATAGTA
Found at i:3539793 original size:7 final size:8
Alignment explanation
Indices: 3539765--3539792 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
3539755 TTTCAACAAC
3539765 AAAAATAA
1 AAAAATAA
3539773 AAAAATAA
1 AAAAATAA
3539781 AAAAATAA
1 AAAAATAA
3539789 AAAA
1 AAAA
3539793 TCTGTGCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:3542608 original size:165 final size:165
Alignment explanation
Indices: 3542336--3542666 Score: 608
Period size: 165 Copynumber: 2.0 Consensus size: 165
3542326 CTTGAGGGGG
3542336 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
1 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
* *
3542401 TTAGAAGCATTTATTTTTTAGTTATTATATTATTGCTTGTACAGTGTACTATATATTGAAGTTTA
66 TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
3542466 ACTGAATAATAATACACACGAGGCATTATTTTAAC
131 ACTGAATAATAATACACACGAGGCATTATTTTAAC
*
3542501 AGTGTTAAGATAGCAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
1 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
* *
3542566 TTAGAAGCAGTTATTTTTTAGTTCTTGTATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
66 TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
*
3542631 GCTGAATAATAATACACACGAGGCATTATTTTAAC
131 ACTGAATAATAATACACACGAGGCATTATTTTAAC
3542666 A
1 A
3542667 TGGTATCAGT
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (165 bp):
AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
ACTGAATAATAATACACACGAGGCATTATTTTAAC
Found at i:3548412 original size:27 final size:27
Alignment explanation
Indices: 3548368--3548455 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 27
3548358 TTTGTTATCA
*
3548368 CATCATCTT-AGATGATGTGATACATAT
1 CATCATCTTGA-ATAATGTGATACATAT
3548395 CATCAT-TATGAATAATGTGATACAAATCACAT
1 CATCATCT-TGAATAATGTGATAC--AT---AT
*
3548427 CATCATCTTGAATAATGTGTTACATAT
1 CATCATCTTGAATAATGTGATACATAT
3548454 CA
1 CA
3548456 CGTCATCATC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 1 0.02
29 2 0.04
30 2 0.04
32 22 0.43
33 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (27 bp):
CATCATCTTGAATAATGTGATACATAT
Found at i:3548439 original size:32 final size:32
Alignment explanation
Indices: 3548393--3548467 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
3548383 TGTGATACAT
3548393 ATCATCAT-TATGAATAATGTGATACAAATCAC
1 ATCATCATCT-TGAATAATGTGATACAAATCAC
* *
3548425 ATCATCATCTTGAATAATGTGTTACATATCAC
1 ATCATCATCTTGAATAATGTGATACAAATCAC
*
3548457 GTCATCATCTT
1 ATCATCATCTT
3548468 AGATGACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (32 bp):
ATCATCATCTTGAATAATGTGATACAAATCAC
Found at i:3549398 original size:20 final size:20
Alignment explanation
Indices: 3549351--3549398 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3549341 AAACTTAAAT
* *
3549351 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATAAAAA
3549371 TCGCAACGCGAAAATAAAAA
1 TCGCAACGCGAAAATAAAAA
3549391 TCGCAACG
1 TCGCAACG
3549399 TTGCGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATAAAAA
Found at i:3549633 original size:23 final size:23
Alignment explanation
Indices: 3549607--3549706 Score: 94
Period size: 23 Copynumber: 4.2 Consensus size: 23
3549597 GCACTAAACC
3549607 TATATGATGTCCTTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
* * **
3549630 TATATAAGTGTTTACTTCTGGAATG-T
1 TATATGA-TG--TCCTT-TTAAATGTT
*
3549656 TATATGATGCCCTTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
* *
3549679 TATATGTTGTCATTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
3549702 TATAT
1 TATAT
3549707 AAGTGAACTA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
22 5 0.08
23 35 0.58
24 2 0.03
25 2 0.03
26 11 0.18
27 5 0.08
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (23 bp):
TATATGATGTCCTTTTAAATGTT
Found at i:3551255 original size:21 final size:21
Alignment explanation
Indices: 3551214--3551255 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3551204 TGGTGCATGG
*
3551214 CGTGATGAGGTACGGTATTTA
1 CGTGATGAGGTAAGGTATTTA
*
3551235 CGTGGTGAGGTAGAGGT-TTTA
1 CGTGATGAGGTA-AGGTATTTA
3551256 TGCGACGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.21, C:0.07, G:0.38, T:0.33
Consensus pattern (21 bp):
CGTGATGAGGTAAGGTATTTA
Found at i:3551657 original size:42 final size:42
Alignment explanation
Indices: 3551605--3551723 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
3551595 GATTCACCTG
** * *
3551605 TCATCGTTCAAGAGGCGTCTC-CTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTCTC-ACCGTTCAAGAGGCCACTA
* *
3551647 TCATCCTTCAAGAGGCCCCTCTCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTCTCACCGTTCAAGAGGCCACTA
* *
3551689 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGGCCCCTCTCACCGTTCAAGAG
3551724 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCTCACCGTTCAAGAGGCCACTA
Found at i:3551717 original size:21 final size:21
Alignment explanation
Indices: 3551630--3551723 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
3551620 CGTCTCCTAT
*
3551630 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCTCA-C
3551652 C-TTCAAGAGGCCCCTCTCAC
1 CGTTCAAGAGGCCCCTCTCAC
* * *
3551672 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCCCTCTCAC
* *
3551693 CGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCTCAC
3551714 CGTTCAAGAG
1 CGTTCAAGAG
3551724 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 2 0.03
21 59 0.95
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCTCAC
Found at i:3553445 original size:161 final size:156
Alignment explanation
Indices: 3553247--3553575 Score: 550
Period size: 156 Copynumber: 2.1 Consensus size: 156
3553237 TTGCGATTTG
*
3553247 ACTTTCGCGTTGCGAATTCAAGGAAAACACATTCAAAAAGATAACAGACAACAATCTGATAAGTG
1 ACTTTCGCGTTGCAAATTCAAGGAAAACACATTCAAAAAGATAACAGACAACAATCTGATAAGTG
* *
3553312 TAAATAAGAAATAAGAATTGTTTTTTTTTTGTTTAATTGATTTGTTGTTTAATTTTACTCTGCAT
66 TAAATAAGAAAT---AA-TG-TTTTTTTTTGTTTAATTGATTTGTTGTTTAATTTCACTATGCAT
*
3553377 TATGTTGAAGGCAAAAAATACCAAAAGGTAC
126 TATGTTGAAGGCAAAAAAGACCAAAAGGTAC
*
3553408 ACTTTCGCGTTGCAAATTCAAGGAAAACACCTTCAAAAAGATAACAGACAACAATCTGATAAGTG
1 ACTTTCGCGTTGCAAATTCAAGGAAAACACATTCAAAAAGATAACAGACAACAATCTGATAAGTG
3553473 TAAATAAGAAATAATGTTTTTTTTTGTTTAATTGATTTGTTGTTTAATTTCACTATGCATTATGT
66 TAAATAAGAAATAATGTTTTTTTTTGTTTAATTGATTTGTTGTTTAATTTCACTATGCATTATGT
* *
3553538 TGAAGGCAAAAAAGACCAGAATGTAC
131 TGAAGGCAAAAAAGACCAAAAGGTAC
3553564 ACTTTCGCGTTG
1 ACTTTCGCGTTG
3553576 TGAATTTGAT
Statistics
Matches: 161, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
156 82 0.51
157 2 0.01
158 2 0.01
161 75 0.47
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (156 bp):
ACTTTCGCGTTGCAAATTCAAGGAAAACACATTCAAAAAGATAACAGACAACAATCTGATAAGTG
TAAATAAGAAATAATGTTTTTTTTTGTTTAATTGATTTGTTGTTTAATTTCACTATGCATTATGT
TGAAGGCAAAAAAGACCAAAAGGTAC
Found at i:3553693 original size:16 final size:16
Alignment explanation
Indices: 3553664--3553699 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3553654 AAGAAATAAG
* *
3553664 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
3553680 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
3553696 AATT
1 AATT
3553700 TCACTCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:3553771 original size:20 final size:20
Alignment explanation
Indices: 3553746--3553804 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
3553736 AGGTACACTT
*
3553746 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
3553766 TCGCAACGCAAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
3553786 TCGTAACGCGAAAGTCAAA
1 TCGCAACGCGAAAGTCAAA
3553805 TTTACGTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAA
Found at i:3553833 original size:20 final size:20
Alignment explanation
Indices: 3553810--3553847 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3553800 TCAAATTTAC
3553810 GTTGCGATTTTGACTTTCAT
1 GTTGCGATTTTGACTTTCAT
3553830 GTTGCGATTTTGACTTTC
1 GTTGCGATTTTGACTTTC
3553848 GCGTTGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTGACTTTCAT
Found at i:3553853 original size:20 final size:20
Alignment explanation
Indices: 3553808--3553853 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3553798 AGTCAAATTT
3553808 ACGTTGCGATTTTGACTTTC
1 ACGTTGCGATTTTGACTTTC
*
3553828 ATGTTGCGATTTTGACTTTC
1 ACGTTGCGATTTTGACTTTC
*
3553848 GCGTTG
1 ACGTTG
3553854 TGAATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (20 bp):
ACGTTGCGATTTTGACTTTC
Found at i:3554019 original size:20 final size:20
Alignment explanation
Indices: 3553994--3554037 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3553984 AAAATACCAG
3553994 AAGTCAAATTCGCAATACGA
1 AAGTCAAATTCGCAATACGA
* *
3554014 AAGTCAAATTCGCATTGCGA
1 AAGTCAAATTCGCAATACGA
3554034 AAGT
1 AAGT
3554038 GTACCTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (20 bp):
AAGTCAAATTCGCAATACGA
Found at i:3554346 original size:18 final size:18
Alignment explanation
Indices: 3554323--3554358 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3554313 AAGTCGGTTG
*
3554323 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
3554341 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
3554359 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:3556658 original size:24 final size:24
Alignment explanation
Indices: 3556624--3556677 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3556614 CTAAAACATC
3556624 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
3556648 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3556672 ATCAAA
1 ATCAAA
3556678 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3556691 original size:24 final size:24
Alignment explanation
Indices: 3556624--3556691 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
3556614 CTAAAACATC
* * *
3556624 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
3556648 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
3556672 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
3556692 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:3556820 original size:12 final size:12
Alignment explanation
Indices: 3556798--3556836 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
3556788 GGAAAGGTAG
3556798 TGTGTTTTGATAT
1 TGTG-TTTGATAT
3556811 TGTGTTTGATAT
1 TGTGTTTGATAT
*
3556823 TGTGTTTGGTAT
1 TGTGTTTGATAT
3556835 TG
1 TG
3556837 GAAATGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (12 bp):
TGTGTTTGATAT
Found at i:3557449 original size:16 final size:16
Alignment explanation
Indices: 3557428--3557458 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3557418 AAATCATTGA
3557428 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
3557444 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
3557459 AAATAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:3557673 original size:20 final size:20
Alignment explanation
Indices: 3557650--3557687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3557640 TATTGTGAAT
3557650 TCAAAAATCGAGTTGCGAAA
1 TCAAAAATCGAGTTGCGAAA
* *
3557670 TCAAAATTCGTGTTGCGA
1 TCAAAAATCGAGTTGCGA
3557688 TTTAGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
TCAAAAATCGAGTTGCGAAA
Found at i:3557697 original size:40 final size:40
Alignment explanation
Indices: 3557625--3557709 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
3557615 AAAGCTGTTA
* *
3557625 CGAAATTAAAATTCGTATTGTGAATTCAAAAATCGAGTTG
1 CGAAATCAAAATTCGTATTGCGAATTCAAAAATCGAGTTG
* * **
3557665 CGAAATCAAAATTCGTGTTGCG-ATTTAGAAAATCTTGTTG
1 CGAAATCAAAATTCGTATTGCGAATTCA-AAAATCGAGTTG
3557705 CGAAA
1 CGAAA
3557710 AGGAAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (40 bp):
CGAAATCAAAATTCGTATTGCGAATTCAAAAATCGAGTTG
Found at i:3557808 original size:20 final size:20
Alignment explanation
Indices: 3557782--3557892 Score: 100
Period size: 20 Copynumber: 5.5 Consensus size: 20
3557772 TGACTTCTGT
3557782 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
* *
3557802 ATTGCGATTTA-ACTATTCAC
1 GTTGCGATTTACA-TATTCGC
* * * * *
3557822 GTTACGAATTTAGAAAATAGC
1 GTTGCG-ATTTACATATTCGC
*
3557843 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
3557863 GTTGCGATTTATC-TATTCGC
1 GTTGCGATTTA-CATATTCGC
*
3557883 GTTGCAATTT
1 GTTGCGATTT
3557893 TAGAACCTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.01
20 56 0.78
21 14 0.19
22 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:3562186 original size:17 final size:17
Alignment explanation
Indices: 3562159--3562198 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
3562149 TCTGTTGACA
3562159 AAAATCACGAAGAATTAC
1 AAAA-CACGAAGAATTAC
3562177 AAAACACGAAGAATTAC
1 AAAACACGAAGAATTAC
3562194 AAAAC
1 AAAAC
3562199 TATTTACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAACACGAAGAATTAC
Found at i:3565431 original size:15 final size:15
Alignment explanation
Indices: 3565408--3565464 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
3565398 TATCATATCT
3565408 ATAATTATTTATTAAA
1 ATAA-TATTTATTAAA
3565424 ATAATATTCT-TT-AA
1 ATAATATT-TATTAAA
*
3565438 ATATTATTTATTAAA
1 ATAATATTTATTAAA
*
3565453 ATAATATATATT
1 ATAATATTTATT
3565465 TTTATTATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 18 0.51
16 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATATTTATTAAA
Found at i:3565451 original size:14 final size:14
Alignment explanation
Indices: 3565411--3565452 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3565401 CATATCTATA
3565411 ATTATTTATTAAAAT
1 ATTATTTATT-AAAT
*
3565426 AATATTCT-TTAAAT
1 ATTATT-TATTAAAT
3565440 ATTATTTATTAAA
1 ATTATTTATTAAA
3565453 ATAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 1 0.04
14 14 0.61
15 7 0.30
16 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTTATTAAAT
Found at i:3565902 original size:20 final size:21
Alignment explanation
Indices: 3565877--3565969 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
3565867 TTTTCCCAAT
*
3565877 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3565897 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
3565918 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3565938 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3565959 TCGCAATGCGA
1 TCGCAATGCGA
3565970 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3565983 original size:20 final size:20
Alignment explanation
Indices: 3565958--3566052 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
3565948 AATTGGGAAA
*
3565958 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
3565978 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
3565999 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
3566019 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
*
3566039 TTCGCAACGCGATA
1 ATCGCAACGCGATA
3566053 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3565984 original size:41 final size:41
Alignment explanation
Indices: 3565877--3565969 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3565867 TTTTCCCAAT
3565877 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3565918 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3565959 TCGCAATGCGA
1 TCGCAATGCGA
3565970 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:3566268 original size:22 final size:22
Alignment explanation
Indices: 3566240--3566283 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3566230 CACTCTCTCA
3566240 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
3566262 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
3566284 TATCTAAATC
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:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:3566567 original size:20 final size:20
Alignment explanation
Indices: 3566542--3566580 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3566532 GCGATTCTCT
3566542 TGTTGCGATAATCATTTTCG
1 TGTTGCGATAATCATTTTCG
**
3566562 TGTTGCGATTTTCATTTTC
1 TGTTGCGATAATCATTTTC
3566581 AGAAACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (20 bp):
TGTTGCGATAATCATTTTCG
Found at i:3567917 original size:18 final size:18
Alignment explanation
Indices: 3567896--3567940 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3567886 TCCACTTCGG
*
3567896 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
3567914 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
3567932 GAGCCATCA
1 GAGCCATCA
3567941 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:3568474 original size:19 final size:20
Alignment explanation
Indices: 3568420--3568486 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
3568410 TAGTTTACTT
* *
3568420 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
3568440 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
3568460 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
3568479 TCGCAACG
1 TCGCAACG
3568487 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:3568494 original size:14 final size:14
Alignment explanation
Indices: 3568475--3568532 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3568465 ATGCGAAATG
*
3568475 AAAATCGCAACGAC
1 AAAATCGCAACGAA
3568489 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
3568505 ATGAAATCGCAACGAA
1 A--AAATCGCAACGAA
3568521 AAAATCGCAACG
1 AAAATCGCAACG
3568533 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:3568517 original size:32 final size:33
Alignment explanation
Indices: 3568459--3568549 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
3568449 GGAAATGGCT
*
3568459 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
3568492 ATCGCAATGCGAAATG-AAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
3568524 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
3568550 TGCGAGTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:3568585 original size:14 final size:14
Alignment explanation
Indices: 3568566--3568623 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3568556 TTGTGTTTCG
3568566 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3568580 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
3568596 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
3568612 CGTTGCGATTTT
1 CGTTGCGATTTT
3568624 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3568597 original size:32 final size:33
Alignment explanation
Indices: 3568561--3568639 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
3568551 GCGAGTTGTG
3568561 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
3568593 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
3568626 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
3568640 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:3568638 original size:19 final size:19
Alignment explanation
Indices: 3568580--3568697 Score: 86
Period size: 20 Copynumber: 6.4 Consensus size: 19
3568570 GCGATTTTGT
3568580 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
3568598 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
3568612 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
3568631 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
3568651 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
3568670 CGTTACGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
3568690 TGTTGCGA
1 CGTTGCGA
3568698 AAGTAAACTA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.03
17 2 0.03
18 11 0.14
19 25 0.32
20 28 0.35
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:3570697 original size:19 final size:19
Alignment explanation
Indices: 3570675--3570711 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3570665 ATCGCAACGA
*
3570675 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGAGAAAT
3570694 GAAAATCGCAATGAGAAA
1 GAAAATCGCAATGAGAAA
3570712 ATCGCAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGAGAAAT
Found at i:3570719 original size:14 final size:14
Alignment explanation
Indices: 3570665--3570720 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
3570655 CGAAATGGCT
*
3570665 ATCGCAACGAGAAA
1 ATCGCAATGAGAAA
3570679 ATCGCAATGCGAAATGAAA
1 ATCGCAAT--G--A-GAAA
3570698 ATCGCAATGAGAAA
1 ATCGCAATGAGAAA
3570712 ATCGCAATG
1 ATCGCAATG
3570721 CGATTTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 12 0.33
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (14 bp):
ATCGCAATGAGAAA
Found at i:3570736 original size:33 final size:33
Alignment explanation
Indices: 3570646--3570723 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
3570636 AAAACAGACT
* ***
3570646 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
3570679 ATCGCAATGCGAAATGAAAATCGCAATGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
3570712 ATCGCAATGCGA
1 ATCGCAATGCGA
3570724 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:3571088 original size:20 final size:20
Alignment explanation
Indices: 3571059--3571098 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3571049 GCGCTATGTA
3571059 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
*
3571079 AATCGTGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
3571099 TATCTCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:3571109 original size:20 final size:20
Alignment explanation
Indices: 3571066--3571111 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3571056 GTAAATCGCG
*
3571066 TTGCGAAAGTCAGAATCGTG
1 TTGCGAAAGTCAGAATCGTA
*
3571086 TTGCGAAAGTCAGTATC-TCA
1 TTGCGAAAGTCAGAATCGT-A
3571106 TTGCGA
1 TTGCGA
3571112 TTTTGTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (20 bp):
TTGCGAAAGTCAGAATCGTA
Found at i:3571128 original size:21 final size:22
Alignment explanation
Indices: 3571097--3571156 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 22
3571087 TGCGAAAGTC
*
3571097 AGTATCTCATTGCGATTTTGT-
1 AGTATCGCATTGCGATTTTGTA
* *
3571118 ATTATCGCATTGCGA--TAGTA
1 AGTATCGCATTGCGATTTTGTA
3571138 AGTATCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
3571157 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 13 0.42
22 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (22 bp):
AGTATCGCATTGCGATTTTGTA
Found at i:3571172 original size:41 final size:41
Alignment explanation
Indices: 3571080--3571174 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
3571070 GAAAGTCAGA
* * * * ** *
3571080 ATCGTGTTGCGAAAGTCAGTATCTCATTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
3571121 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
3571163 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
3571175 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:3583674 original size:176 final size:171
Alignment explanation
Indices: 3583269--3583733 Score: 625
Period size: 171 Copynumber: 2.7 Consensus size: 171
3583259 GATCTAAATA
* * * * *
3583269 AAAAATATATCGATCCATATCAATATAACAGGTAAAAATATGACAAAACCGGTCACGAAAAGACA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAC-AAACCGGTCACGAAAAGATA
* *
3583334 AAACCGATAAAGCGCTACCGGATATTGAAATTGTCGATACTTTAATATAAGTATCGACACTTTGA
65 AAACCGGTAAAGCGCTACCGGATATTGAAAGTGTCGATACTTTAATAT-AGTATCGACACTTTGA
* * *
3583399 ATTTAAAATAGAAGTTAACGCCTATAAAGTGTCGATACTTTAT
129 ATTTAAAAGAGAAGTTAACGCCTAAAAAGCGTCGATACTTTAT
*
3583442 AAAAATGTATCGATCCACAACGAT-TAA-AGGTAAAAATATGATAAAACCGGTCACGAAAAGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGA-CAAACCGGTCACGAAAAGATA
* *
3583505 AAATCGGTAAAGTGCTACCGGATATTGAAAGTGTCGATACTTTAATATAGTATCGACACTTTGTG
65 AAACCGGTAAAGCGCTACCGGATATTGAAAGTGTCGATACTTTAATATAGTATCGACAC-TT-TG
* *
3583570 AA-TTAAGAGAGAAGCGGTTTTAGCGCCTAAAAAGCGTCGATACTTTAT
128 AATTTAAAAGAGAA---G--TTAACGCCTAAAAAGCGTCGATACTTTAT
* *
3583618 AAAAATGTATCGATCCACAACGATATAACAAGTAAAAATA-GACAAACCGATCACGAAAAGATAA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAACCGGTCACGAAAAGATAA
*
3583682 AACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATA-AGTA
66 AACCGGTAAAGCGCTACCGG--ATATTGAAAGTGTCGATACTTTAATATAGTA
3583734 CGCGTAATAA
Statistics
Matches: 259, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
170 11 0.04
171 88 0.34
172 7 0.03
173 20 0.08
174 1 0.00
176 87 0.34
177 9 0.03
178 36 0.14
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (171 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAACCGGTCACGAAAAGATAA
AACCGGTAAAGCGCTACCGGATATTGAAAGTGTCGATACTTTAATATAGTATCGACACTTTGAAT
TTAAAAGAGAAGTTAACGCCTAAAAAGCGTCGATACTTTAT
Found at i:3585308 original size:87 final size:87
Alignment explanation
Indices: 3585204--3585366 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
3585194 AAATAGGTCA
3585204 ATATAAGCGCTACCTATTACATTATATAAGA-GCTACCTAATATGTTATTGTACTTGATAATATT
1 ATATAAGCGCTACCTATTACATTATATAA-ATGCTACCTAATATGTTATTGTACTTGATAATATT
3585268 TCCAGTTAAATGCCTATTTTATT
65 TCCAGTTAAATGCCTATTTTATT
* *
3585291 ATATAAGCGTTATCTATTACATTATATAAATGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAATGCTACCTAATATGTTATTGTACTTGATAATATTT
* *
3585356 TCGGTTAAATG
66 CCAGTTAAATG
3585367 ATATAACATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 70 0.99
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAATGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAGTTAAATGCCTATTTTATT
Found at i:3585646 original size:51 final size:51
Alignment explanation
Indices: 3585591--3585703 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
3585581 CCCCTGAACA
* * * *
3585591 GCGCTATATGCTGATTTGGCGCCACGTGGAGTATAGCGCGCCCTCTG-TACC
1 GCGCTATATGCTGACTGGGCGACACGTGGAGTATAGCGCGCCCCCTGCT-CC
* * ** *
3585642 GCGCTATACGTTGACTGGGTTACACGTGGGGTATAGCGCGCCCCCTGCTCC
1 GCGCTATATGCTGACTGGGCGACACGTGGAGTATAGCGCGCCCCCTGCTCC
3585693 GCGCTATATGC
1 GCGCTATATGC
3585704 CACGTAGGGG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (51 bp):
GCGCTATATGCTGACTGGGCGACACGTGGAGTATAGCGCGCCCCCTGCTCC
Found at i:3589849 original size:36 final size:37
Alignment explanation
Indices: 3589809--3589886 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 37
3589799 GGATAAAGAT
*
3589809 AAAAAGAAAATAG-ATAATAAATGAGTAAAAT-AT-ATA
1 AAAAAGAAAA-AGCAT-ATAAATAAGTAAAATAATAATA
* *
3589845 AAAAAGTAAAAGCATATATATAAGTAAAATAATAATA
1 AAAAAGAAAAAGCATATAAATAAGTAAAATAATAATA
3589882 AAAAA
1 AAAAA
3589887 ACAGAAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 15 0.42
36 13 0.36
37 8 0.22
ACGTcount: A:0.68, C:0.01, G:0.09, T:0.22
Consensus pattern (37 bp):
AAAAAGAAAAAGCATATAAATAAGTAAAATAATAATA
Found at i:3591390 original size:106 final size:106
Alignment explanation
Indices: 3591206--3592374 Score: 1899
Period size: 106 Copynumber: 11.0 Consensus size: 106
3591196 GGATTGTTCC
* * * *
3591206 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
3591270 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3591312 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** * *
3591377 CCAGCGGTCCCTTCGTTTTGAAGTTGAACTTGCGTCGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3591418 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
3591483 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3591524 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
3591589 CCAGCAGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3591630 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
3591695 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
3591736 GAGTCCAATATCTTTCGTTATGAAGTTGAAATTGGGTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
3591801 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3591842 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
3591907 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
3591948 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
3592013 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3592054 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
3592119 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3592160 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTTGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
3592225 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3592266 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
3592331 CCAGCGGTCCCTTCGTCGTGAATTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3592372 GAG
1 GAG
3592375 AGAAACTGTC
Statistics
Matches: 989, Mismatches: 73, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
106 988 1.00
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:3592445 original size:21 final size:21
Alignment explanation
Indices: 3592385--3592445 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
3592375 AGAAACTGTC
*
3592385 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
*
3592406 TCAA-GGA-A-G--A-TTGTC
1 TCAAGGGAGACGAAATTTGTT
3592421 TCAAGGGAGACGAAATTTGTT
1 TCAAGGGAGACGAAATTTGTT
3592442 TCAA
1 TCAA
3592446 AGAAAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 12
0.67 0.07 0.26
Matches are distributed among these distances:
15 8 0.26
16 4 0.13
17 1 0.03
18 1 0.03
19 1 0.03
20 4 0.13
21 12 0.39
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (21 bp):
TCAAGGGAGACGAAATTTGTT
Found at i:3592497 original size:37 final size:36
Alignment explanation
Indices: 3592375--3592512 Score: 145
Period size: 37 Copynumber: 3.8 Consensus size: 36
3592365 TTGTCTGGAG
* *
3592375 AGAA-ACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
* * * * *
3592410 GGAAGATTGTCTCAAGGGAGACGAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
* * *
3592446 AGAAAAACTATCTCAAGCGAGATAAAATCTTGTTTTAA
1 AG-AAGACTGTCTCAAGCGAGACAAAAT-TTGTTTTAA
3592484 ATG-AGACTGTCTCAAGCGAGACAAAATTT
1 A-GAAGACTGTCTCAAGCGAGACAAAATTT
3592513 ATATTGGAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
35 3 0.04
36 32 0.38
37 40 0.47
38 9 0.11
39 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
Found at i:3593285 original size:22 final size:22
Alignment explanation
Indices: 3593259--3593333 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
3593249 TTGTGTTTGG
3593259 TCAAAGGTTTGGCTTTTGATGC
1 TCAAAGGTTTGGCTTTTGATGC
** *
3593281 TCAAATATTTGG-TATTTGATGT
1 TCAAAGGTTTGGCT-TTTGATGC
* *
3593303 TCAAAGGTTTGTCATTTGATGC
1 TCAAAGGTTTGGCTTTTGATGC
3593325 TCAAAGGTT
1 TCAAAGGTT
3593334 AGATGGGGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.43
Consensus pattern (22 bp):
TCAAAGGTTTGGCTTTTGATGC
Found at i:3593962 original size:19 final size:18
Alignment explanation
Indices: 3593936--3593983 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
3593926 TTTTTGTCCC
3593936 TTTTTCTTTTTGATTTTG
1 TTTTTCTTTTTGATTTTG
**
3593954 TTCTTTCTTTTTTCTTTTG
1 TT-TTTCTTTTTGATTTTG
*
3593973 TTTCTCTTTTT
1 TTTTTCTTTTT
3593984 CTTTGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTGATTTTG
Found at i:3593982 original size:16 final size:16
Alignment explanation
Indices: 3593957--3593991 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3593947 GATTTTGTTC
3593957 TTTCT-TTTTTCTTTTG
1 TTTCTCTTTTTC-TTTG
3593973 TTTCTCTTTTTCTTTG
1 TTTCTCTTTTTCTTTG
3593989 TTT
1 TTT
3593992 TTGATTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTG
Found at i:3597240 original size:37 final size:36
Alignment explanation
Indices: 3597199--3597272 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
3597189 GGATAAAGAT
*
3597199 AAAAAGAAAATAG-ATAAATAAATGAGTAAAATATATA
1 AAAAAGAAAA-AGCATAAATAAATAAGTAAAATA-ATA
* * *
3597236 AAAAAGTAAAAGCATATATATATAAGTAAAATAATA
1 AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
3597272 A
1 A
3597273 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.23
Consensus pattern (36 bp):
AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
Found at i:3597254 original size:20 final size:20
Alignment explanation
Indices: 3597229--3597266 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3597219 AATGAGTAAA
3597229 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
3597249 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
3597267 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:3597338 original size:2 final size:2
Alignment explanation
Indices: 3597325--3597357 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3597315 AAAATAGGAA
*
3597325 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3597358 ATAACACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3598116 original size:6 final size:6
Alignment explanation
Indices: 3598108--3598142 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
3598098 GCTGTCATCG
* *
3598108 TCGTCG TCGTCA TCGTCA TCGTCA TCGTCG TCGTC
1 TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA TCGTC
3598143 CTGAGCAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.34, G:0.23, T:0.34
Consensus pattern (6 bp):
TCGTCA
Found at i:3598129 original size:12 final size:12
Alignment explanation
Indices: 3598108--3598142 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3598098 GCTGTCATCG
3598108 TCGTCGTCGTCA
1 TCGTCGTCGTCA
*
3598120 TCGTCATCGTCA
1 TCGTCGTCGTCA
3598132 TCGTCGTCGTC
1 TCGTCGTCGTC
3598143 CTGAGCAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.34, G:0.23, T:0.34
Consensus pattern (12 bp):
TCGTCGTCGTCA
Found at i:3599406 original size:268 final size:267
Alignment explanation
Indices: 3598921--3599454 Score: 944
Period size: 268 Copynumber: 2.0 Consensus size: 267
3598911 AGTGGAGTGT
*
3598921 CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
1 CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCAAAACATCTGATGGACCCCTCAA
** *
3598986 CTCAGGTGGGATCACCGCCCTCATATCATCAGTAGAATACGACACCCATTCAAACTAAAACAAAT
66 CTCAGGTGAAATCACCGCCCTCACATCATCAGTAGAATACGACACCCATTCAAACTAAAACAAAT
3599051 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
131 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
*
3599116 CATTAAAATTCATACATGTGTGCCAGCCTTCCGATCGATTAGCACCCTAATTTTTTTCTAAATCA
196 CATTAAAATTCATACATGTGTGCCAACCTTCCGATCGATTAGCACCCTAA-TTTTTTCTAAATCA
3599181 TCAGGTAC
260 TCAGGTAC
* *
3599189 CACTCGACGGTCGCATAACAGATCAGATGGACCATCACCATCAAAACATCTGATGGACCCCTCAA
1 CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCAAAACATCTGATGGACCCCTCAA
* *
3599254 CTCATGTGAAATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
66 CTCAGGTGAAATCACCGCCCTCACATCATCAGTAGAATACGACACCCATTCAAACTAAAACAAAT
*
3599319 AATATATAATTTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAA
131 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
*
3599384 CATTAAAATTCATA-ACTGTGTGCCAACCTTCTGATCGATTAGCACCCTAATTTTTTCTAAATCA
196 CATTAAAATTCATACA-TGTGTGCCAACCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCA
3599448 TCAGGTA
260 TCAGGTA
3599455 GCTCCTGATG
Statistics
Matches: 254, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
267 22 0.09
268 232 0.91
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (267 bp):
CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCAAAACATCTGATGGACCCCTCAA
CTCAGGTGAAATCACCGCCCTCACATCATCAGTAGAATACGACACCCATTCAAACTAAAACAAAT
AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
CATTAAAATTCATACATGTGTGCCAACCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCAT
CAGGTAC
Found at i:3600429 original size:111 final size:111
Alignment explanation
Indices: 3600289--3600510 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
3600279 ATTATAAAAA
3600289 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
3600354 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTGTAGAGATAT
*
3600400 TTAATTCTTAATCTAATAATCATGTATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
3600465 AATTAAAACGTTAAAATTTTATCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTGTAGAGATAT
3600511 ATGATTTCCA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTGTAGAGATAT
Found at i:3600615 original size:17 final size:18
Alignment explanation
Indices: 3600574--3600612 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3600564 ATTATATTAG
3600574 TAAAATA-TTAAATAAAA
1 TAAAATACTTAAATAAAA
*
3600591 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAA
3600609 TAAA
1 TAAA
3600613 TACATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAA
Found at i:3600851 original size:50 final size:49
Alignment explanation
Indices: 3600797--3600922 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 49
3600787 AGATACCCAG
* * *
3600797 GTATAGCGCGGATCAGGGGGCACGCTATACCCACGTGGCGCCAAATCACC
1 GTATAGCGCGG-TCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
* * * *
3600847 GTATATCGCAGGGCAGGGCGCGCGCTATACCCACATGACGCCAAATCAGC
1 GTATAGCGC-GGTCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
3600897 GTATAGCGCGGTTCAGGGGGCGCGCT
1 GTATAGCGCGG-TCAGGGGGCGCGCT
3600923 TTACTGCTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 2 0.03
50 60 0.94
51 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (49 bp):
GTATAGCGCGGTCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
Found at i:3601037 original size:2 final size:2
Alignment explanation
Indices: 3601030--3601063 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3601020 TAAAACCTTA
3601030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3601064 TACTTGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3604660 original size:36 final size:36
Alignment explanation
Indices: 3604613--3604755 Score: 232
Period size: 36 Copynumber: 4.0 Consensus size: 36
3604603 AAAGATGAAC
* * *
3604613 ACTTGAATCGAAAGTGCCGATGCCTCTTTCCCTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
3604649 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
3604685 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
* * *
3604721 ACTTGAATCAAAAGTGCAGATGCTTCCTTTCGTTC
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC
3604756 TTCTTATTCA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 101 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
Found at i:3606839 original size:13 final size:12
Alignment explanation
Indices: 3606821--3606859 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
3606811 AATGGTAGAA
3606821 TTTTTTTTATCTT
1 TTTTTTTTAT-TT
3606834 TTTTTTTTATTT
1 TTTTTTTTATTT
*
3606846 TGTTTCTTTATTT
1 T-TTTTTTTATTT
3606859 T
1 T
3606860 CAGTAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:3608352 original size:2 final size:2
Alignment explanation
Indices: 3608345--3608378 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3608335 CTATCTGTCC
3608345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3608379 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3609449 original size:22 final size:22
Alignment explanation
Indices: 3609424--3609490 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
3609414 AGAATAATGA
3609424 TTGTTATATAACGATAAAGGTG
1 TTGTTATATAACGATAAAGGTG
* *
3609446 TTGTCTA-A-AATCG-T-TA-TTG
1 TTGT-TATATAA-CGATAAAGGTG
*
3609465 TTGTTATATAATGATAAAGGTG
1 TTGTTATATAACGATAAAGGTG
3609487 TTGT
1 TTGT
3609491 CTAAAATCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 4 0.12
21 4 0.12
22 13 0.39
23 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.43
Consensus pattern (22 bp):
TTGTTATATAACGATAAAGGTG
Found at i:3609481 original size:41 final size:41
Alignment explanation
Indices: 3609424--3609505 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
3609414 AGAATAATGA
3609424 TTGTTATATAACGATAAAGGTGTTGTCTAAAATCGTTATTG
1 TTGTTATATAACGATAAAGGTGTTGTCTAAAATCGTTATTG
*
3609465 TTGTTATATAATGATAAAGGTGTTGTCTAAAATCGTTATTG
1 TTGTTATATAACGATAAAGGTGTTGTCTAAAATCGTTATTG
3609506 CACAACTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.43
Consensus pattern (41 bp):
TTGTTATATAACGATAAAGGTGTTGTCTAAAATCGTTATTG
Found at i:3611973 original size:14 final size:14
Alignment explanation
Indices: 3611954--3611983 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3611944 CATTGTAACA
3611954 CTCTAAACCTAAGC
1 CTCTAAACCTAAGC
*
3611968 CTCTAAACCTGAGC
1 CTCTAAACCTAAGC
3611982 CT
1 CT
3611984 AAAGTGTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.23
Consensus pattern (14 bp):
CTCTAAACCTAAGC
Found at i:3620877 original size:42 final size:42
Alignment explanation
Indices: 3620818--3620897 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
3620808 CAAATGACTT
*
3620818 ATCATCTTGCTCGAAAGACTTACAGATAGCCCGAAGGATTTA
1 ATCATCATGCTCGAAAGACTTACAGATAGCCCGAAGGATTTA
* * *
3620860 ATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGGA
1 ATCATCATGCTCGAAAGACTTACAGATAGCCCGAAGGA
3620898 CTTACTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTTACAGATAGCCCGAAGGATTTA
Found at i:3621135 original size:260 final size:259
Alignment explanation
Indices: 3620527--3621550 Score: 1346
Period size: 260 Copynumber: 3.9 Consensus size: 259
3620517 ATATGAATCT
* * ** * * * *
3620527 TACCCAAAGGTCTTATAAATGTTCCGAA-GAACTTATCATCTTACTCGAAAGACTGATAGATAAC
1 TACCCGAAGGTCTTATAGATGACCCGAATG-ACTTAACATCTTGCTCGAAAGACTGACAGATGAC
* * * * **
3620591 CCAAAGAATTTAATCATCATGCTCAAAAGACTTACTGGTGGCCCGAAGAACTTAACAATTTTATA
65 CCAAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
*
3620656 AATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTT-AAAAATTTCATTTTCT-G
130 AATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTT-TAG
* * * * * *
3620719 AAAATA-TTAAATCATAAACTATGAAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATC
194 AAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATC
3620783 C
259 C
* * * * * *
3620784 TACCCGAAGGTCTTATGGAAGGCCCAAATGACTTATCATCTTGCTCGAAAGACTTACAGAT-AGC
1 TACCCGAAGGTCTTATAGATGACCCGAATGACTTAACATCTTGCTCGAAAGACTGACAGATGA-C
* * * *
3620848 CCGAAGGATTTAATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGGACTTACTAATTTTGGA
65 CCAAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
3620913 AATAGTTTACT-GTGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTAG
130 AATAGTTTACTAG-GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTAG
*
3620977 AAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAAACAT
194 AAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTG-AAAACAT
3621042 CC
258 CC
*
3621044 TACCCGAAGGTCTTATAGATGACCCGAATGACTTAACATCTTGCTCGGAAGACTGACAGATGACC
1 TACCCGAAGGTCTTATAGATGACCCGAATGACTTAACATCTTGCTCGAAAGACTGACAGATGACC
* * * * *
3621109 CAAAGAATTTAATCATCATACTCGAAAAACTTACTGATGGCCTGAAGGACTTACCGACTTTGGAA
66 CAAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* *
3621174 ATAGTTTACTAGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTTTGA
131 ATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA-TTTTTAGA
* ** *
3621239 AAA-ATTTTAAATGAGAAAATTTGGAAATTGCTTTCTCATTTTTCGAAAATCATGTGGAAACATC
195 AAAGA-TTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATC
3621303 C
259 C
* * * * * *
3621304 TGCCCGAATGTCTTATAGATGACCCGAAGGACTTAACTTCTTGCTCGATAGA-TAAACAGATGAC
1 TACCCGAAGGTCTTATAGATGACCCGAATGACTTAACATCTTGCTCGAAAGACT-GACAGATGAC
** * * *
3621368 CTGAAGGATTTAATCATCATGCTTGAAACACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
65 CCAAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
* *
3621433 AATAGTTTA-TTGGTTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCAG
130 AATAGTTTACTAGG-TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTAG
* * * *
3621497 AAAAGATTTAAATGAGAAACTTTGGAAATCATTTTTTAATTTTTTTGAAAATCA
194 AAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCA-TTTTTCGAAAATCA
3621551 ACTTAATGAT
Statistics
Matches: 674, Mismatches: 78, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
256 2 0.00
257 149 0.22
258 21 0.03
259 84 0.12
260 359 0.53
261 59 0.09
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (259 bp):
TACCCGAAGGTCTTATAGATGACCCGAATGACTTAACATCTTGCTCGAAAGACTGACAGATGACC
CAAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
ATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTAGAA
AAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCC
Found at i:3623630 original size:9 final size:9
Alignment explanation
Indices: 3623588--3623669 Score: 51
Period size: 9 Copynumber: 8.3 Consensus size: 9
3623578 ACTTGATTTG
*
3623588 TTCTCTTTC
1 TTCTCTTTT
3623597 TTCTTCTTCTT
1 TTC-TCTT-TT
3623608 TT-TCTTATT
1 TTCTCTT-TT
3623617 TTCTCTTTT
1 TTCTCTTTT
3623626 TTCTCATCTTT
1 TTCTC-T-TTT
*
3623637 TTGGCTTTTTT
1 TT--CTCTTTT
3623648 ATTCT-TTTT
1 -TTCTCTTTT
3623657 TGTCTCTTTT
1 T-TCTCTTTT
3623667 TTC
1 TTC
3623670 GAATGTGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
8 1 0.02
9 27 0.45
10 16 0.27
11 11 0.18
12 3 0.05
13 2 0.03
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.72
Consensus pattern (9 bp):
TTCTCTTTT
Found at i:3623647 original size:29 final size:27
Alignment explanation
Indices: 3623588--3623667 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 27
3623578 ACTTGATTTG
*
3623588 TTCTCTTTCTTCTTCTTCTTTTTCTTATT
1 TTCTCTTTTTTC-TC-TCTTTTTCTTATT
3623617 TTCTCTTTTTTCTCATCTTTTTGGCTT-TT
1 TTCTCTTTTTTCTC-TCTTTTT--CTTATT
* *
3623646 TTATTCTTTTTTGTCTCTTTTT
1 TT-CTCTTTTTTCTCTCTTTTT
3623668 TCGAATGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 9 0.20
29 22 0.50
30 13 0.30
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (27 bp):
TTCTCTTTTTTCTCTCTTTTTCTTATT
Found at i:3627258 original size:23 final size:23
Alignment explanation
Indices: 3627225--3627292 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
3627215 AACCTTATAT
*
3627225 GGCACTTCGGTGCATTTTTACGC
1 GGCACTTCGGTGCATTTATACGC
* * * * *
3627248 GGCACTACGGTGTAATTCTACGT
1 GGCACTTCGGTGCATTTATACGC
3627271 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTATACG
3627293 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGC
Found at i:3634065 original size:20 final size:19
Alignment explanation
Indices: 3634022--3634065 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3634012 TGAGAGGTAT
*
3634022 TAAAATAGTAACATAAACC
1 TAAAATAGTAACATAAAAC
* *
3634041 TAAAATATTAGCATAAAAAC
1 TAAAATAGTAACAT-AAAAC
3634061 TAAAA
1 TAAAA
3634066 AAAATCAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (19 bp):
TAAAATAGTAACATAAAAC
Found at i:3638485 original size:2 final size:2
Alignment explanation
Indices: 3638475--3638599 Score: 66
Period size: 2 Copynumber: 63.0 Consensus size: 2
3638465 ATTTGAAAAA
*
3638475 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * * *
3638515 AT AT AT A- AA AT GT AT AA ACT AT AA AA AGT AT AT AGT TT AT AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT AT
*
3638557 ACT AT A- AT TT AT AT -T A- AT AT AGT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
3638598 AT
1 AT
3638600 TATTTAAAGT
Statistics
Matches: 95, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
1 7 0.07
2 82 0.86
3 6 0.06
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3638507 original size:25 final size:25
Alignment explanation
Indices: 3638475--3638599 Score: 77
Period size: 25 Copynumber: 5.1 Consensus size: 25
3638465 ATTTGAAAAA
3638475 ATATAATATATATATATATATATAT
1 ATATAATATATATATATATATATAT
* *
3638500 ATATAATATA-AGTTTATATATAAAAT
1 ATATAATATATA-TATATATAT-ATAT
* *
3638526 GTATAA-ACTATA-A-AAAGTATATAGT
1 ATATAATA-TATATATATA-TATATA-T
* *
3638551 TTATAA-ACTATA-ATTTATAT-TA-
1 ATATAATA-TATATATATATATATAT
*
3638573 ATATAGTATATATATATATATATAT
1 ATATAATATATATATATATATATAT
3638598 AT
1 AT
3638600 TATTTAAAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
22 8 0.10
23 8 0.10
24 9 0.12
25 40 0.52
26 11 0.14
27 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
ATATAATATATATATATATATATAT
Found at i:3638576 original size:29 final size:29
Alignment explanation
Indices: 3638544--3638601 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
3638534 TATAAAAAGT
* *
3638544 ATATAGTTTATAAACTATA-ATTTATATTA
1 ATATAGTATATAAA-TATATATATATATTA
*
3638573 ATATAGTATATATATATATATATATATTA
1 ATATAGTATATAAATATATATATATATTA
3638602 TTTAAAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
ATATAGTATATAAATATATATATATATTA
Found at i:3638701 original size:20 final size:20
Alignment explanation
Indices: 3638676--3638735 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
3638666 TTTATTTGGG
3638676 AATTTAGAGGGAAATTGAGA
1 AATTTAGAGGGAAATTGAGA
*
3638696 AATTTAGAGGG-AATAT-AAA
1 AATTTAGAGGGAAAT-TGAGA
*
3638715 AATTTGGAGGGAAATTGAGA
1 AATTTAGAGGGAAATTGAGA
3638735 A
1 A
3638736 TTGAGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (20 bp):
AATTTAGAGGGAAATTGAGA
Found at i:3638737 original size:19 final size:19
Alignment explanation
Indices: 3638675--3638737 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
3638665 TTTTATTTGG
3638675 GAATTTAGAGGGAAATTGA
1 GAATTTAGAGGGAAATTGA
*
3638694 GAAATTTAGAGGG-AATATAA
1 G-AATTTAGAGGGAAAT-TGA
* *
3638714 AAATTTGGAGGGAAATTGA
1 GAATTTAGAGGGAAATTGA
3638733 GAATT
1 GAATT
3638738 GAGATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (19 bp):
GAATTTAGAGGGAAATTGA
Found at i:3639187 original size:21 final size:22
Alignment explanation
Indices: 3639153--3639195 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3639143 ATAAATCATG
3639153 TATAGTATATATAAACTATATA
1 TATAGTATATATAAACTATATA
* *
3639175 TATA-TATTTATAAATTATATA
1 TATAGTATATATAAACTATATA
3639196 AAATAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATAGTATATATAAACTATATA
Found at i:3639307 original size:14 final size:14
Alignment explanation
Indices: 3639288--3639322 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3639278 AAACCTTAAT
3639288 CATAAACATTAAAC
1 CATAAACATTAAAC
*
3639302 CATAAACTTTAAAC
1 CATAAACATTAAAC
3639316 CATAAAC
1 CATAAAC
3639323 CCTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (14 bp):
CATAAACATTAAAC
Found at i:3639768 original size:2 final size:2
Alignment explanation
Indices: 3639732--3639756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3639722 ATATAACCTC
3639732 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3639757 GTAAACTATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3639805 original size:573 final size:542
Alignment explanation
Indices: 3639139--3640789 Score: 2069
Period size: 524 Copynumber: 3.0 Consensus size: 542
3639129 TAGTACATGC
* *
3639139 ATGTATAAATCATGTATAGTATATATAAACTATATATATATAT-T-TATA-A-ATT--A-TATA-
1 ATGTATAAACCATGTATAGTATATATAACCTATATATATATATATATATATATATTAAACTATAT
* * *
3639196 AAA-TAAATTACTTATATAGTTTATAGAAATACTATGCATAAACTATATAAAATAATAAAATATA
66 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
* *
3639260 TAATTTTATAAAAACCTTAAACCTTAATCATAAACATTAAACCATAAACTTTAAACCATAAACCC
131 T-AGTTTATAGAAA-CTTAAACCTTAATCATAAACATTAAACCATAAACTTTAAACCATAAACCC
* * *
3639325 TATTATAAATAAACTAGCCCTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTG
194 TATTATAAATGAACTAGCACTAATGC--ATATATATTTGTAATAAAAGAGTGAGCTTATGTATTG
*
3639390 GACATATGTAAACTAATATAAATGGACTAGCACTATTGTAAATGGACTTATTTTTTGGTTTTATT
257 GACATATGTAAACTAATATAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATT
3639455 ATTACTTATTCATAACAACAAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAA
322 ATTACTTATTCATAACAAC-AAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAA
*
3639520 AATACTAATTATGCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATAAAATATGCA
386 AATACTAATTATGCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCA
*
3639585 ATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATT
451 ATGTGACATACTAATTATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATT
3639650 TTATTAATTTTATTAAATAAGTTTATATAATATGT
516 TTATTAA---TA-T-AAT---TTTATATAATATGT
*
3639685 ATGTATAAATCATGTATAGTATATATAAACTATAAATATATAACCTCTATATATATATATATATA
1 ATGTATAAACCATGTATAG-------------T--ATATATAA-C-CTATATATATATATATATA
*
3639750 TATATATGTAAACTATATAAAGTAAATTACTTATATAGTTTAAAGAAACACTATGCATAAACTAT
49 TATATAT-TAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTAT
* * *
3639815 ATAAAGTAATAAAGTATATAGTTTATAGAAACTCTAAATCCTAAATCATAAACCTTAAACCCCTA
113 ATAAAGTAATAAAGTATATAGTTTATAGAAACT-TAAA-CCTTAATCATAAACATTAAA-CCAT-
* * *
3639880 AATTTTAATTCATAAACCCTAAACCCTAAATCATAATATAAATGAACTAACACTAATGCATATAT
174 AA----ACTT--TAAACCATAAACCC----T-AT--TATAAATGAACTAGCACTAATGCATATAT
* * *
3639945 ATTTGTAATAAAATAGTGAGCTTATGTATTAGGCCTATGTAAAGTAATGTAAATGGACTGGCATT
226 ATTTGTAATAAAAGAGTGAGCTTATGTATT--G-----G-ACA-T-ATGT-AA---ACT---AAT
* *
3640010 ATTGCAAATGGACTAGTACTATTGCAAATGGACTTATTTTTTTGTTTTATTATTACTTATTCATA
274 A-T--AAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATA
* * *
3640075 ACAACAAAATAAATTGGTTATTAATGTGAATTAACCTAGCATGCAACTAAAATACTAATAATGCA
336 ACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCA
3640140 AATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAAT
401 AATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAAT
3640205 TATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAA-ATAATTT
466 TATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATATAATTT
3640269 TATATAATATGT
531 TATATAATATGT
3640281 ATGTATAAACCATGTATAGTATATATAACC----TATATATATATATATATATA-TAAACTATAT
1 ATGTATAAACCATGTATAGTATATATAACCTATATATATATATATATATATATATTAAACTATAT
* *
3640341 AAAGTATATTACTTATATAGTTTATAGAAACACTATCCATAAACTATATAAAGTAATAAAGTATA
66 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
*
3640406 TAGTTTATAGAAAC----A-C-TAA--AT---CA-TAAACCTTAAACTTTAAACCATAAACCCTA
131 TAGTTTATAGAAACTTAAACCTTAATCATAAACATTAAACCATAAACTTTAAACCATAAACCCTA
* * * * * *
3640459 ATATAAATGGACTAGCACTAATGCATATATATTTATAATAAAAGAGTGTGCTTATGTATTGGGCC
196 TTATAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGAGCTTATGTATTGGACA
* * * *
3640524 TATGTAAATTAATGTAAATGGACTAGCACTATTGCAAATAGACTTATTTGTTGGTTTTATTATTA
261 TATGTAAACTAATATAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTA
* *
3640589 CTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATAT
326 CTTATTCATAACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAAAATAC
* * *
3640654 TAATTATGCAAATGAAATTAATATGACATGTACTTCTATTTATGAATCATATAATATGCAATGTG
391 TAATTATGCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTG
3640719 ACATACTAATTATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATA
456 ACATACTAATTATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTAT-
3640784 TAATAT
520 TAATAT
3640790 GTATATATAA
Statistics
Matches: 979, Mismatches: 60, Indels: 152
0.82 0.05 0.13
Matches are distributed among these distances:
524 232 0.24
525 3 0.00
526 3 0.00
527 2 0.00
530 2 0.00
533 2 0.00
534 4 0.00
535 1 0.00
537 1 0.00
542 1 0.00
544 54 0.06
546 20 0.02
547 1 0.00
551 13 0.01
553 3 0.00
557 2 0.00
558 3 0.00
559 5 0.01
560 1 0.00
561 8 0.01
563 16 0.02
564 1 0.00
565 6 0.01
566 2 0.00
567 2 0.00
568 2 0.00
570 1 0.00
571 6 0.01
572 17 0.02
573 162 0.17
574 3 0.00
575 22 0.02
579 4 0.00
580 1 0.00
581 21 0.02
583 1 0.00
585 1 0.00
586 36 0.04
588 21 0.02
593 1 0.00
594 2 0.00
595 1 0.00
596 36 0.04
597 2 0.00
599 3 0.00
600 4 0.00
601 1 0.00
603 3 0.00
604 1 0.00
605 177 0.18
606 62 0.06
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (542 bp):
ATGTATAAACCATGTATAGTATATATAACCTATATATATATATATATATATATATTAAACTATAT
AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
TAGTTTATAGAAACTTAAACCTTAATCATAAACATTAAACCATAAACTTTAAACCATAAACCCTA
TTATAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGAGCTTATGTATTGGACA
TATGTAAACTAATATAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTA
CTTATTCATAACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAAAATAC
TAATTATGCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTG
ACATACTAATTATTTAACACTTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATT
AATATAATTTTATATAATATGT
Found at i:3640020 original size:20 final size:20
Alignment explanation
Indices: 3639995--3640043 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
3639985 AAAGTAATGT
* *
3639995 AAATGGACTGGCATTATTGC
1 AAATGGACTAGCACTATTGC
*
3640015 AAATGGACTAGTACTATTGC
1 AAATGGACTAGCACTATTGC
3640035 AAATGGACT
1 AAATGGACT
3640044 TATTTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (20 bp):
AAATGGACTAGCACTATTGC
Found at i:3640277 original size:13 final size:13
Alignment explanation
Indices: 3640245--3640271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3640235 TAATTTACAT
3640245 TTAAATAATTTTA
1 TTAAATAATTTTA
3640258 TTAAATAATTTTA
1 TTAAATAATTTTA
3640271 T
1 T
3640272 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:3640357 original size:25 final size:25
Alignment explanation
Indices: 3640295--3640349 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
3640285 ATAAACCATG
* *
3640295 TATAGTATATATAACCTATATATATA
1 TATA-TATATATAAACTATATAAATA
3640321 TATATATATATAAACTATATAAAGTA
1 TATATATATATAAACTATATAAA-TA
3640347 TAT
1 TAT
3640350 TACTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
TATATATATATAAACTATATAAATA
Found at i:3640433 original size:49 final size:49
Alignment explanation
Indices: 3640330--3640423 Score: 154
Period size: 48 Copynumber: 1.9 Consensus size: 49
3640320 ATATATATAT
* **
3640330 ATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATCC
1 ATAAACTATATAAAGTATATAAAGTATATAGTTTATAGAAACACTATCC
3640379 ATAAACTATATAAAGTA-ATAAAGTATATAGTTTATAGAAACACTA
1 ATAAACTATATAAAGTATATAAAGTATATAGTTTATAGAAACACTA
3640424 AATCATAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 25 0.60
49 17 0.40
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAAACTATATAAAGTATATAAAGTATATAGTTTATAGAAACACTATCC
Found at i:3640920 original size:49 final size:49
Alignment explanation
Indices: 3640817--3640922 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 49
3640807 ATATATATAT
* ** * **
3640817 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAACC
* *
3640866 ATAAACTATATATAGT-AATAAAGTATATAGTTTATAAAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACT-AACC
*
3640915 TTAAACTA
1 ATAAACTA
3640923 GAACCCATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 23 0.49
49 24 0.51
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAACC
Found at i:3640968 original size:21 final size:21
Alignment explanation
Indices: 3640903--3640969 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
3640893 TAGTTTATAA
* * *
3640903 AAACCCTAAACCTTAAACTAG
1 AAACCATAAACCCTAAACTAT
* * * *
3640924 AACCCATAAATCCTAAAATTT
1 AAACCATAAACCCTAAACTAT
*
3640945 AAACCATAAACCCTAAACCAT
1 AAACCATAAACCCTAAACTAT
3640966 AAAC
1 AAAC
3640970 ACTAATATAA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (21 bp):
AAACCATAAACCCTAAACTAT
Found at i:3640969 original size:14 final size:14
Alignment explanation
Indices: 3640944--3640974 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3640934 TCCTAAAATT
*
3640944 TAAACCATAAACCC
1 TAAACCATAAACAC
3640958 TAAACCATAAACAC
1 TAAACCATAAACAC
3640972 TAA
1 TAA
3640975 TATAAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCATAAACAC
Found at i:3650083 original size:185 final size:186
Alignment explanation
Indices: 3649759--3650149 Score: 637
Period size: 185 Copynumber: 2.1 Consensus size: 186
3649749 TTTTCTAATT
* * *
3649759 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAA
*
3649823 TTATAAAATAAAAAAATTTATATAATTTTTTAAATTAATTAATATTGATTTAAGTTTAAAAGTTA
66 TTATAAAATAAAAAAATTTATACAATTTTTTAAATTAATTAATATTGATTTAAGTTTAAAAGTTA
* * *
3649888 TTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGTTGA-GCCTATATGTTA
131 TTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGAGCTAAGGCC-ATATGTTA
3649944 TATATAATATATTTAATATTTTTTAATTCAAAAAAATAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATA
*
3650009 ATTATAAAAT-AAAAAATTTATACAATTTTTT-AATTAATTAATATTGATTTAGGTTTAAAAGTT
65 ATTATAAAATAAAAAAATTTATACAATTTTTTAAATTAATTAATATTGATTTAAGTTTAAAAGTT
* *
3650072 ATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGAGCTAAGGCCATATGTTA
130 ATTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGAGCTAAGGCCATATGTTA
*
3650129 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
3650150 AATTTCGGTT
Statistics
Matches: 192, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
185 106 0.55
186 49 0.26
187 37 0.19
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAAAATTTATACAATTTTTTAAATTAATTAATATTGATTTAAGTTTAAAAGTTA
TTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGAGCTAAGGCCATATGTTA
Found at i:3652635 original size:49 final size:49
Alignment explanation
Indices: 3652582--3652685 Score: 201
Period size: 49 Copynumber: 2.1 Consensus size: 49
3652572 GTTTTAGATA
3652582 AAATATTAATTTGATCTTAAATTTTATATAAAATACTAATTTAACTCCT
1 AAATATTAATTTGATCTTAAATTTTATATAAAATACTAATTTAACTCCT
3652631 AAATATTAATTTGATCTTAAATTTTATATAAAATACTAATTTAACTCCT
1 AAATATTAATTTGATCTTAAATTTTATATAAAATACTAATTTAACTCCT
3652680 -AATATT
1 AAATATT
3652686 TATGTAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 6 0.11
49 49 0.89
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (49 bp):
AAATATTAATTTGATCTTAAATTTTATATAAAATACTAATTTAACTCCT
Found at i:3652665 original size:30 final size:31
Alignment explanation
Indices: 3652631--3652706 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
3652621 TTTAACTCCT
* *
3652631 AAATATTAATTTGA-TCTTAA-ATTTTATATA
1 AAATATTAATTTAACTCCTAATA-TTTATATA
* *
3652661 AAATACTAATTTAACTCCTAATATTTATGTA
1 AAATATTAATTTAACTCCTAATATTTATATA
*
3652692 AAATATCAATTTAAC
1 AAATATTAATTTAAC
3652707 CCATGAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 12 0.32
31 25 0.66
32 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (31 bp):
AAATATTAATTTAACTCCTAATATTTATATA
Found at i:3652703 original size:49 final size:49
Alignment explanation
Indices: 3652598--3652695 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
3652588 TAATTTGATC
* * **
3652598 TTAAATTTTATATAAAATACTAATTTAACTCCTAAATATTAATTTGATC
1 TTAAATTTTATATAAAATACTAATTTAACTCCTAAATATTAATGTAAAA
*
3652647 TTAAATTTTATATAAAATACTAATTTAACTCCT-AATATTTATGTAAAA
1 TTAAATTTTATATAAAATACTAATTTAACTCCTAAATATTAATGTAAAA
3652695 T
1 T
3652696 ATCAATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 11 0.25
49 33 0.75
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (49 bp):
TTAAATTTTATATAAAATACTAATTTAACTCCTAAATATTAATGTAAAA
Found at i:3653820 original size:16 final size:17
Alignment explanation
Indices: 3653789--3653861 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 17
3653779 TCCTTTTTAT
3653789 TATTATTTTATTATTTG
1 TATTATTTTATTATTTG
*
3653806 TATTGTTTT-TTATTTG
1 TATTATTTTATTATTTG
* *
3653822 T-TCATTTTATT-TTTT
1 TATTATTTTATTATTTG
**
3653837 TATT-TCCTATTATTAT-
1 TATTATTTTATTATT-TG
3653853 TATTATTTT
1 TATTATTTT
3653862 GTCTATACAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
15 14 0.33
16 17 0.40
17 11 0.26
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (17 bp):
TATTATTTTATTATTTG
Found at i:3653852 original size:21 final size:21
Alignment explanation
Indices: 3653811--3653853 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3653801 ATTTGTATTG
**
3653811 TTTTTTATTTGTTCATTTTAT
1 TTTTTTATTTCCTCATTTTAT
3653832 TTTTTTATTTCCT-ATTATTAT
1 TTTTTTATTTCCTCATT-TTAT
3653853 T
1 T
3653854 ATTATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTATTTCCTCATTTTAT
Found at i:3653926 original size:18 final size:19
Alignment explanation
Indices: 3653903--3653950 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
3653893 TATTTATTTC
*
3653903 TATTTTTGTTTATCCTT-T
1 TATTTTTGTTTATCATTAT
*
3653921 TATTTTT-TTTATTATTAT
1 TATTTTTGTTTATCATTAT
3653939 T-TTTTTGTTTAT
1 TATTTTTGTTTAT
3653951 TTTTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (19 bp):
TATTTTTGTTTATCATTAT
Found at i:3653940 original size:15 final size:15
Alignment explanation
Indices: 3653920--3653967 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
3653910 GTTTATCCTT
3653920 TTATTTTTTTTATTA
1 TTATTTTTTTTATTA
3653935 TTATTTTTTTGT-TTA
1 TTATTTTTTT-TATTA
3653950 TT-TTTTTGTTTATT-
1 TTATTTTT-TTTATTA
3653964 TTAT
1 TTAT
3653968 ATCTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.28
15 20 0.69
16 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTATTTTTTTTATTA
Found at i:3653941 original size:20 final size:20
Alignment explanation
Indices: 3653782--3653941 Score: 53
Period size: 20 Copynumber: 7.8 Consensus size: 20
3653772 AATTTAGTCC
*
3653782 TTTTTATTATTATTTTATTA
1 TTTTTATTATTATTTTATTT
* *
3653802 TTTGTATTGTT-TTTTA-TT
1 TTTTTATTATTATTTTATTT
* *
3653820 TGTTCATT-TTATTTT-TTT
1 TTTTTATTATTATTTTATTT
*
3653838 ATTTCCTATTATTATTATTATTT
1 -TTT-TTATTATTATT-TTATTT
* * * *
3653861 TGTCTATACATTATTATATATATA
1 TTTTTAT-TATTATT-T-TAT-TT
* *
3653885 TATATATTTATTTATTTCTA-TT
1 TTTTTA-TTA-TTATTT-TATTT
* **
3653907 TTTGT-TTATCCTTTTATTT
1 TTTTTATTATTATTTTATTT
3653926 TTTTTATTATTATTTT
1 TTTTTATTATTATTTT
3653942 TTTGTTTATT
Statistics
Matches: 102, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
17 2 0.02
18 14 0.14
19 17 0.17
20 23 0.23
21 9 0.09
22 16 0.16
23 6 0.06
24 9 0.09
25 6 0.06
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTATTATTATTTTATTT
Found at i:3653953 original size:11 final size:12
Alignment explanation
Indices: 3653905--3653965 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
3653895 TTTATTTCTA
*
3653905 TTTTTGTTTATC
1 TTTTTGTTTATT
* *
3653917 CTTTTATTT-TT
1 TTTTTGTTTATT
*
3653928 TTTATT-ATTATT
1 TTT-TTGTTTATT
3653940 TTTTTGTTTATT
1 TTTTTGTTTATT
3653952 TTTTTGTTTATT
1 TTTTTGTTTATT
3653964 TT
1 TT
3653966 ATATCTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
11 7 0.17
12 33 0.82
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTGTTTATT
Found at i:3655718 original size:64 final size:64
Alignment explanation
Indices: 3655576--3655738 Score: 239
Period size: 58 Copynumber: 2.6 Consensus size: 64
3655566 CAAGACTTTT
3655576 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
* *
3655640 AGAG------TCAACTTCACAGCGAAGGATATTGGACTCAACAAACAATTTTTTAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
** *
3655698 AGAGTCAATTTCAACTTCACATTGAAGGATATTGAACTCAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAA
3655739 AGCAATACAA
Statistics
Matches: 88, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
58 56 0.64
64 32 0.36
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
Found at i:3655794 original size:55 final size:54
Alignment explanation
Indices: 3655705--3655899 Score: 188
Period size: 55 Copynumber: 3.7 Consensus size: 54
3655695 TTCAGAGTCA
* ** *
3655705 ATTTCAACTTCACATTGAAGGATATTGAACTCAAAGCAATACAACCAAATATTGG
1 ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGCAATACAA-CAAATATTGG
* * * * *
3655760 ATTTCAACTTCACAATGAAGTATATCCAATTCAAATC-ATTC-A-GAGTCA----
1 ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGCAATACAACAAAT-ATTGG
* ** **
3655808 ATTTCAATTTCACAGGGAAGGATATTGAATTCAAAGCAATACAATCAAATATTGG
1 ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGCAATACAA-CAAATATTGG
3655863 ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGC
1 ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGC
3655900 TCAACTTCAA
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
48 30 0.28
49 3 0.03
50 1 0.01
51 3 0.03
52 3 0.03
53 1 0.01
54 3 0.03
55 63 0.59
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (54 bp):
ATTTCAACTTCACAATGAAGGATATCCAATTCAAAGCAATACAACAAATATTGG
Found at i:3655871 original size:103 final size:103
Alignment explanation
Indices: 3655692--3655897 Score: 358
Period size: 103 Copynumber: 2.0 Consensus size: 103
3655682 TTTTTTAGTT
**
3655692 TCATTCAGAGTCAATTTCAACTTCACATTGAAGGATATTGAACTCAAAGCAATACAACCAAATAT
1 TCATTCAGAGTCAATTTCAACTTCACAGGGAAGGATATTGAACTCAAAGCAATACAACCAAATAT
*
3655757 TGGATTTCAACTTCACAATGAAGTATATCCAATTCAAA
66 TGGATTTCAACTTCACAATGAAGGATATCCAATTCAAA
* * *
3655795 TCATTCAGAGTCAATTTCAATTTCACAGGGAAGGATATTGAATTCAAAGCAATACAATCAAATAT
1 TCATTCAGAGTCAATTTCAACTTCACAGGGAAGGATATTGAACTCAAAGCAATACAACCAAATAT
3655860 TGGATTTCAACTTCACAATGAAGGATATCCAATTCAAA
66 TGGATTTCAACTTCACAATGAAGGATATCCAATTCAAA
3655898 GCTCAACTTC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (103 bp):
TCATTCAGAGTCAATTTCAACTTCACAGGGAAGGATATTGAACTCAAAGCAATACAACCAAATAT
TGGATTTCAACTTCACAATGAAGGATATCCAATTCAAA
Found at i:3656035 original size:42 final size:42
Alignment explanation
Indices: 3655925--3656039 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
3655915 AGGAGCCATC
*
3655925 CACGATTTCAACTCCACGACGAAGGATATCGTGCCCACACAT
1 CACGATTTCAACTTCACGACGAAGGATATCGTGCCCACACAT
* * *
3655967 CCACGATTTTAACTTCACGACAAAGGATATCGTG-TCAGCAACAT
1 -CACGATTTCAACTTCACGACGAAGGATATCGTGCCCA-C-ACAT
** *
3656011 -TGGATTTCAACTTCACAACGAAGGATATC
1 CACGATTTCAACTTCACGACGAAGGATATC
3656040 CAATTCAAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.43
43 31 0.51
44 4 0.07
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
CACGATTTCAACTTCACGACGAAGGATATCGTGCCCACACAT
Found at i:3656474 original size:137 final size:137
Alignment explanation
Indices: 3656310--3656988 Score: 959
Period size: 137 Copynumber: 5.0 Consensus size: 137
3656300 CCAATTCGAG
* * * * * *
3656310 AACTCTTCATCACGAAGGAGCAGCATCATCTTTAGATAGCCAGATGTCCTCATCACGAATGCACC
1 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
* * * *
3656375 ATGTTATCTCAAATATCTTCAAAGATTGTCAGAAC-TCCTCATCACGAAGGAACAATATCATCCA
66 GTGTTATCTCAAATATCTTCAAAGATGGTCAG-ACGTCCTTATCACGAAGGAACAATGTCATCCA
*
3656439 CCTATCAA
130 CCGATCAA
*
3656447 AACTCTTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
1 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
* * * *
3656512 ATGTTATCTCAAATATCTTCAAAGATGGTCGGACGTCCTCATCACGAAGGAACAATGTCATCCTC
66 GTGTTATCTCAAATATCTTCAAAGATGGTCAGACGTCCTTATCACGAAGGAACAATGTCATCCAC
3656577 CGATCAA
131 CGATCAA
* * * *
3656584 AACTCCTCATCACGAAAGAGCAACATCATCTTTAGATAGCTAGATGTCCTCATCACGAAGGAACT
1 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
* * *
3656649 GTGTTATCTCAAATATCATCAAAGATGGTCAGATGTCCTTATCACGAATGG-ACAATGTCATCTA
66 GTGTTATCTCAAATATCTTCAAAGATGGTCAGACGTCCTTATCACGAA-GGAACAATGTCATCCA
* *
3656713 CAGATCAG
130 CCGATCAA
* *
3656721 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTACTCATCACGAAGGAACT
1 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
* * *
3656786 GTGTTATCTCAAATATCTTTAAAGATGGTCAGACGTCCTTATCATGAAGGAATAATGTCATCCAC
66 GTGTTATCTCAAATATCTTCAAAGATGGTCAGACGTCCTTATCACGAAGGAACAATGTCATCCAC
*
3656851 CGATCAG
131 CGATCAA
* * * *
3656858 AACTCCTCATCACAAATGAGCAACATCACCCTTAAATAGCCAGATGTCCTCATCATGAAGGAACC
1 AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
* * * *
3656923 GTGTTTTCTCAAATATCTTCAAAGATGGCCAGACGTCCTTATCAC-AAGGAAACAATATCATACA
66 GTGTTATCTCAAATATCTTCAAAGATGGTCAGACGTCCTTATCACGAAGG-AACAATGTCATCCA
3656987 CC
130 CC
3656989 AGTTGAATCT
Statistics
Matches: 490, Mismatches: 48, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
136 8 0.02
137 480 0.98
138 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (137 bp):
AACTCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACC
GTGTTATCTCAAATATCTTCAAAGATGGTCAGACGTCCTTATCACGAAGGAACAATGTCATCCAC
CGATCAA
Found at i:3658758 original size:19 final size:20
Alignment explanation
Indices: 3658734--3658784 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3658724 AATGACCAAT
3658734 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
3658753 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
3658773 AAAATCGCAACG
1 AAAATCGCAACG
3658785 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:3658778 original size:20 final size:20
Alignment explanation
Indices: 3658734--3659031 Score: 147
Period size: 20 Copynumber: 14.6 Consensus size: 20
3658724 AATGACCAAT
*
3658734 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
3658753 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
3658773 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
3658793 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
**
3658813 AAAATCGCAACGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
3658834 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
3658857 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * *
3658877 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * *
3658897 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * * *
3658917 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTGAG
* *
3658937 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
3658957 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
3658980 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
3659000 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
*
3659020 AGAATCGCAACG
1 AAAATCGCAACG
3659032 TTGAAAATCG
Statistics
Matches: 231, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.06
20 166 0.72
21 19 0.08
22 4 0.02
23 26 0.11
24 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:3658910 original size:40 final size:40
Alignment explanation
Indices: 3658859--3659029 Score: 218
Period size: 40 Copynumber: 4.2 Consensus size: 40
3658849 TTTAGAAGAA
*
3658859 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGATAG
* * *
3658899 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAT
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGATAG
* *
3658939 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGA-AG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGA-TT-GATAG
* * *
3658980 AAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 --AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGATAG
3659022 AATCGCAA
1 AATCGCAA
3659030 CGTTGAAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
40 76 0.66
41 5 0.04
42 4 0.03
43 30 0.26
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGATAG
Found at i:3659857 original size:6 final size:6
Alignment explanation
Indices: 3659841--3659902 Score: 117
Period size: 6 Copynumber: 10.5 Consensus size: 6
3659831 TCTCGTCTCG
3659841 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
3659888 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
3659903 AATACGTGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.09
6 51 0.91
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:3660003 original size:20 final size:20
Alignment explanation
Indices: 3659978--3660021 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3659968 TTTTTAACTA
*
3659978 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
3659998 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
3660018 TTCT
1 TTCT
3660022 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:3660031 original size:20 final size:20
Alignment explanation
Indices: 3660008--3660345 Score: 223
Period size: 20 Copynumber: 16.6 Consensus size: 20
3659998 TTCTTTTTAA
3660008 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
3660028 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
*
3660048 CATTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
3660068 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
3660088 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
3660108 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
3660128 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * * *
3660151 CGTTACGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
3660171 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
3660191 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
3660211 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
3660234 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
3660255 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
3660273 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
3660295 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
3660315 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
3660334 CGTTGCGATTTT
1 CGTTGCGATTTT
3660346 ATTGGTCATT
Statistics
Matches: 255, Mismatches: 52, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 189 0.74
21 14 0.05
22 6 0.02
23 27 0.11
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:3660054 original size:40 final size:40
Alignment explanation
Indices: 3660010--3660241 Score: 320
Period size: 40 Copynumber: 5.7 Consensus size: 40
3660000 CTTTTTAACG
3660010 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
3660050 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
* * * *
3660090 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
* *
3660130 TTGCGATTTTCTTCTAAATCGCGTTACGACTCTCTCAATCGCA
1 TTGCGA--TT-TTCTAAATCGCGTTGCGATTCTCTCAATCGCA
* * * *
3660173 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
3660213 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGA--TT-TTCTAAATCGCGTTGCGA
3660242 ACTTGGAAGC
Statistics
Matches: 167, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
40 114 0.68
41 2 0.01
42 4 0.02
43 47 0.28
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
Done.