Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005981.1 Hibiscus syriacus cultivar Beakdansim tig00014058_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: 121613
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:3447 original size:62 final size:62
Alignment explanation
Indices: 3320--3476 Score: 187
Period size: 62 Copynumber: 2.5 Consensus size: 62
3310 TAATGGAGGC
* * * * *
3320 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCTTTTATTAGAA
1 ATGCATCGATGCACTCCTAATGCATCGATGCACTGACGACATTCGATGTTCTTGTATTAAAA
*
3382 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCG-TG-T-TTGTATTAAAATTA
1 ATGCATCGATGCACTCCTAATGCATCGATGCACTGACGACATTCGATGTTCTTGTATT-AAA--A
*
3444 ATGCATCGATGCACTTCATAAT-CATCGATGCAC
1 ATGCATCGATGCAC-TCCTAATGCATCGATGCAC
3477 CTTCAACAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
59 6 0.07
60 3 0.04
61 2 0.02
62 68 0.81
63 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCACTGACGACATTCGATGTTCTTGTATTAAAA
Found at i:3471 original size:19 final size:21
Alignment explanation
Indices: 3442--3481 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
3432 GTATTAAAAT
3442 TAATGCATCGATGCA-CTTCA
1 TAATGCATCGATGCACCTTCA
3462 TAAT-CATCGATGCACCTTCA
1 TAATGCATCGATGCACCTTCA
3482 ACAAATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
TAATGCATCGATGCACCTTCA
Found at i:10606 original size:34 final size:33
Alignment explanation
Indices: 10568--10649 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 33
10558 ACAAAAAGGG
10568 GGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
1 GGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
10601 AGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
1 -GGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
10635 GAGAGAAGTGTTAAA
1 G-GAGAAGTGTTAAA
10650 GTAAGGGGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 1 0.02
34 46 0.98
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (33 bp):
GGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
Found at i:10635 original size:18 final size:18
Alignment explanation
Indices: 10578--10635 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
10568 GGAGAAGTGT
10578 TAAATGTGTTTTAAATGA
1 TAAATGTGTTTTAAATGA
** * *
10596 TAAATAG-G--AGAAGTGT
1 TAAAT-GTGTTTTAAATGA
10612 TAAATGTGTTTTAAATGA
1 TAAATGTGTTTTAAATGA
10630 TAAATG
1 TAAATG
10636 AGAGAAGTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
15 1 0.04
16 10 0.36
18 16 0.57
19 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (18 bp):
TAAATGTGTTTTAAATGA
Found at i:16131 original size:23 final size:23
Alignment explanation
Indices: 16082--16155 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
16072 TGTTCGTGTT
* * **
16082 TGTTTATTTATTGTTCACGAACA
1 TGTTTATTTAATGTTCATGAATG
16105 TGTTTATTTAATGTTCATGAATG
1 TGTTTATTTAATGTTCATGAATG
** *
16128 TGTTCGTTTATATGTTCATAAATG
1 TGTTTATTTA-ATGTTCATGAATG
16152 TGTT
1 TGTT
16156 CATGAACATT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 27 0.63
24 16 0.37
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (23 bp):
TGTTTATTTAATGTTCATGAATG
Found at i:16146 original size:24 final size:23
Alignment explanation
Indices: 16111--16156 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
16101 AACATGTTTA
*
16111 TTTAATGTTCATGAATGTGTTCG
1 TTTAATGTTCATAAATGTGTTCG
16134 TTTATATGTTCATAAATGTGTTC
1 TTTA-ATGTTCATAAATGTGTTC
16157 ATGAACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (23 bp):
TTTAATGTTCATAAATGTGTTCG
Found at i:16241 original size:22 final size:22
Alignment explanation
Indices: 16215--16263 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
16205 GACCATATTC
*
16215 GTTTAACATTCA-TTTAGTGTTT
1 GTTTAACATT-ATTTTAATGTTT
* *
16237 GTTTAGCGTTATTTTAATGTTT
1 GTTTAACATTATTTTAATGTTT
16259 GTTTA
1 GTTTA
16264 CCGTTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.57
Consensus pattern (22 bp):
GTTTAACATTATTTTAATGTTT
Found at i:16268 original size:22 final size:22
Alignment explanation
Indices: 16227--16268 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16217 TTAACATTCA
* *
16227 TTTAGTGTTTGTTTAGCGTTAT
1 TTTAATGTTTGTTTACCGTTAT
16249 TTTAATGTTTGTTTACCGTT
1 TTTAATGTTTGTTTACCGTT
16269 CGGTTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (22 bp):
TTTAATGTTTGTTTACCGTTAT
Found at i:16518 original size:22 final size:22
Alignment explanation
Indices: 16490--16545 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
16480 TAAACGAACT
*
16490 CATAAACGAGCTTGTTCGTGAA
1 CATAAACGAACTTGTTCGTGAA
16512 CATAAACGAACTTGTTCGTGAA
1 CATAAACGAACTTGTTCGTGAA
16534 CATAAACGAACT
1 CATAAACGAACT
16546 GAACACACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
CATAAACGAACTTGTTCGTGAA
Found at i:28736 original size:15 final size:15
Alignment explanation
Indices: 28716--28745 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28706 AAAACTTATT
*
28716 TGAATATATAATATA
1 TGAATATACAATATA
28731 TGAATATACAATATA
1 TGAATATACAATATA
28746 AAAAATAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
TGAATATACAATATA
Found at i:32241 original size:30 final size:30
Alignment explanation
Indices: 32206--32262 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
32196 TTGATGATGA
*
32206 ACCAATTACATAAGACATAAATACACTCTT
1 ACCAATTACATAAGACATAAACACACTCTT
*
32236 ACCAATTACATAAGACTTAAACACACT
1 ACCAATTACATAAGACATAAACACACT
32263 TCTATTACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (30 bp):
ACCAATTACATAAGACATAAACACACTCTT
Found at i:51712 original size:21 final size:21
Alignment explanation
Indices: 51681--51740 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
51671 TAATAATTTG
51681 ATAAATTTGATGATTATTTAT
1 ATAAATTTGATGATTATTTAT
* *
51702 A-AAATTTTGATAAATA-TTAT
1 ATAAA-TTTGATGATTATTTAT
*
51722 ATAAATTTAATGATTATTT
1 ATAAATTTGATGATTATTT
51741 TAACTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
ATAAATTTGATGATTATTTAT
Found at i:62768 original size:106 final size:106
Alignment explanation
Indices: 62510--64117 Score: 2548
Period size: 106 Copynumber: 15.4 Consensus size: 106
62500 CAGTTAACAC
*
62510 TTTC-GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
62574 ACGACGAAGGGACCACTGGTTGTCAACGAAC-ATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
62614 TTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
62679 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
62720 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
62785 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
62826 TTTTAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
62891 ATGACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
62924 TTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
62985 ACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
63025 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63090 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
63131 TTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTT-GACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63195 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
63236 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
63301 ACGACGAAGGGACCGCTGGTTATCAACAAAC-ATTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
63341 TTTCAGAGCCAA--T----TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63400 ACGACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
63440 TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63505 ACGACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
63545 TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
63610 ACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
63651 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGTAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63716 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
63757 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
63822 ACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
63863 TTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCATGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
63928 ACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
63969 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
64034 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAG
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
64075 TTCCAGAACCAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 TTTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
64118 GGAACAGTAC
Statistics
Matches: 1404, Mismatches: 76, Indels: 46
0.92 0.05 0.03
Matches are distributed among these distances:
94 78 0.06
95 1 0.00
96 3 0.00
98 6 0.00
99 93 0.07
101 8 0.01
103 3 0.00
104 5 0.00
105 473 0.34
106 734 0.52
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
Found at i:70917 original size:4 final size:4
Alignment explanation
Indices: 70902--72142 Score: 2387
Period size: 4 Copynumber: 310.5 Consensus size: 4
70892 CATGTAACAA
70902 ATAC ACTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
70951 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
70999 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
71047 ATAC ATAC ACAC AGAC ATAC ACAC ATAC AGAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
71095 ACAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71143 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71191 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71239 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71287 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71335 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71383 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71431 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71479 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71527 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71573 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71621 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71669 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71717 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71765 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71813 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71861 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71909 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71957 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
72005 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
72053 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
72101 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
72143 GTCATTATCA
Statistics
Matches: 1219, Mismatches: 15, Indels: 6
0.98 0.01 0.00
Matches are distributed among these distances:
2 2 0.00
4 1213 1.00
5 4 0.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:72555 original size:20 final size:19
Alignment explanation
Indices: 72507--72600 Score: 111
Period size: 18 Copynumber: 4.9 Consensus size: 19
72497 CACTGAATAT
* *
72507 TTGTCCCAAAGGATCACTA
1 TTGTCCCGAAGGACCACTA
72526 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACT-A
* *
72545 TTGTTCCGAAGAACCACTA
1 TTGTCCCGAAGGACCACTA
72564 -TGTCCCGAAGGACCACTA
1 TTGTCCCGAAGGACCACTA
*
72582 TTTGTCCCGAATGACCACT
1 -TTGTCCCGAAGGACCACT
72601 GATAATCCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
18 31 0.48
19 2 0.03
20 31 0.48
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
TTGTCCCGAAGGACCACTA
Found at i:72592 original size:38 final size:37
Alignment explanation
Indices: 72504--72600 Score: 124
Period size: 38 Copynumber: 2.5 Consensus size: 37
72494 GGGCACTGAA
* *
72504 TATTTGTCCCAAAGGATCACTATGTCCCGAAGGACCAC
1 TATTTGTCCCGAA-GACCACTATGTCCCGAAGGACCAC
*
72542 TGA-TTGTTCCGAAGAACCACTATGTCCCGAAGGACCAC
1 T-ATTTGTCCCGAAG-ACCACTATGTCCCGAAGGACCAC
72580 TATTTGTCCCGAATGACCACT
1 TATTTGTCCCGAA-GACCACT
72601 GATAATCCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
37 2 0.04
38 47 0.92
39 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
TATTTGTCCCGAAGACCACTATGTCCCGAAGGACCAC
Found at i:74818 original size:21 final size:21
Alignment explanation
Indices: 74794--74849 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
74784 CCTTGCAATG
* * *
74794 AACCTTAAATCCTAAACCCTA
1 AACCATAAATCATAAACCATA
** *
74815 AACCCCAAATTATAAACCATA
1 AACCATAAATCATAAACCATA
74836 AACCATAAATCATA
1 AACCATAAATCATA
74850 CTTACCTCAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCATAAATCATAAACCATA
Found at i:75604 original size:31 final size:31
Alignment explanation
Indices: 75566--75626 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
75556 AGATACGGTA
*
75566 ATTGCCTTGGAAAGCTGATGCCAAACTCATC
1 ATTGCCTTGGAAAGCTGATGACAAACTCATC
75597 ATTGCCTTGGAAAGCTGATGACAAACTCAT
1 ATTGCCTTGGAAAGCTGATGACAAACTCAT
75627 AGTATGGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (31 bp):
ATTGCCTTGGAAAGCTGATGACAAACTCATC
Found at i:76064 original size:23 final size:23
Alignment explanation
Indices: 76034--76090 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
76024 AAATGAAGAA
76034 CATTACCATAATCAAAGGGAGAT
1 CATTACCATAATCAAAGGGAGAT
76057 CATTACCATAATCAAAGGGAGAT
1 CATTACCATAATCAAAGGGAGAT
*
76080 CA-GACCATAAT
1 CATTACCATAAT
76091 ATAGATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 8 0.24
23 25 0.76
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (23 bp):
CATTACCATAATCAAAGGGAGAT
Found at i:77700 original size:32 final size:32
Alignment explanation
Indices: 77628--77709 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
77618 TATAAAAATT
* * **
77628 TTATTAAGTTTTATCAAAATATTACAAAATGG
1 TTATTAAATTTTATCAAAATATCACAAAATAA
* * *
77660 TAACTAAATTTCATCAAAATATCACAAAATAA
1 TTATTAAATTTTATCAAAATATCACAAAATAA
77692 TTATTAAATTTTATCAAA
1 TTATTAAATTTTATCAAA
77710 CTTGTATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (32 bp):
TTATTAAATTTTATCAAAATATCACAAAATAA
Found at i:79718 original size:3 final size:3
Alignment explanation
Indices: 79706--79791 Score: 93
Period size: 3 Copynumber: 29.0 Consensus size: 3
79696 TATATATATT
* * *
79706 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
79753 TAA TAA TAA TTA TTA TTA TTA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79792 ATAAATTAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:80122 original size:39 final size:36
Alignment explanation
Indices: 80044--80131 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
80034 TTGAACAAGC
* * * * *
80044 TCTTTTCATTGTGAACTTCTTCTTTTTCAGATTAGT
1 TCTTCTCATTATGAACATCTTCTTCTTCAGATGAGT
80080 TCTTCTCATTATGAACATCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACATCTTCTTCTTCAGATGAGT
*
80116 TCTTCTTATTATGAAC
1 TCTTCTCATTATGAAC
80132 TTTCTCTGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.50
Consensus pattern (36 bp):
TCTTCTCATTATGAACATCTTCTTCTTCAGATGAGT
Found at i:80235 original size:113 final size:113
Alignment explanation
Indices: 80079--81191 Score: 1500
Period size: 113 Copynumber: 9.8 Consensus size: 113
80069 TTCAGATTAG
* *
80079 TTCTTCTCATTATGAA---CATCTT-CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
80140 GAAAAGCTGATCTATCAAGTGATGGATTTGAACAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
80188 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* * * * * * ** * *
80253 -CTGGGAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAA
62 TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
80304 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
80369 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
80417 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
80482 GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
80530 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* * * * * * ** * * *
80595 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
62 TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
80646 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
80711 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
80759 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
80824 AAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
****
80872 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
80937 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAAGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* * ****
80985 TTCTTCTCATTATAAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
81050 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* * ****
81098 TTCTTCTCATTATGAATTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
81163 GAAAAGCTAATCTATCAAGTGATGAATTT
66 GAAAAGCTAATCCATCAAGTGATGGATTT
81192 AAATTTTTGC
Statistics
Matches: 899, Mismatches: 91, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
109 16 0.02
112 9 0.01
113 678 0.75
116 192 0.21
117 4 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:80726 original size:342 final size:342
Alignment explanation
Indices: 80079--81191 Score: 1792
Period size: 342 Copynumber: 3.3 Consensus size: 342
80069 TTCAGATTAG
* *
80079 TTCTTCTCATTATGAA---CATCTT-CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
* ** *
80140 GAAAAGCTGATCTATCAAGTGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
* *
80205 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTACCTGGGAATGTTGATCCA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCA
80270 TCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
196 TCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
80335 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGA
261 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGA
80400 GCAAAAGGTTGAACAAA
326 GCAAAAGGTTGAACAAA
80417 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
80482 GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
66 GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
*
80547 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCA
* *
80612 TCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCT
196 TCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
80677 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGA
261 TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGA
80742 GCAAAAGGTTGAACAAA
326 GCAAAAGGTTGAACAAA
80759 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
*
80824 AAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
66 GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
* * * * * *
80889 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTAATCTA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCA
* ** * * *
80951 TCAAGTGAT-AGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATAAACTTCTTCATCCTTC
196 TCAAATGATGA-ATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
**** * *
81015 TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTAATCTATCAAGTGATAGATTTG
260 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTG
81080 AGCAAAAGGTTGAACAAA
325 AGCAAAAGGTTGAACAAA
* * * **** *
81098 TTCTTCTCATTATGAATTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
* * *
81163 GAAAAGCTAATCTATCAAGTGATGAATTT
66 GAAAAGCTGATCCATCAAGTGATGGATTT
81192 AAATTTTTGC
Statistics
Matches: 726, Mismatches: 44, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
338 17 0.02
339 248 0.34
341 5 0.01
342 456 0.63
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (342 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
GAAAAGCTGATCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCA
TCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGA
GCAAAAGGTTGAACAAA
Found at i:82120 original size:83 final size:83
Alignment explanation
Indices: 81981--82251 Score: 463
Period size: 83 Copynumber: 3.3 Consensus size: 83
81971 CTTATTTCTA
* *
81981 CTATGAGCGA-ATTCATCTTTTAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCGA
1 CTATGAGC-ACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAA
82045 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
82064 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
82129 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
82147 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
*
82212 GAACACGTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
82230 CTATTGGGCACATTCATCTTTC
1 CTA-TGAGCACATTCATCTTTC
82252 CAGCTAATGT
Statistics
Matches: 180, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
82 1 0.01
83 162 0.90
84 17 0.09
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:94083 original size:24 final size:23
Alignment explanation
Indices: 94056--94122 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
94046 ATGTAATATT
94056 AATAATATATATAAATACTATAAA
1 AATAATATATATAAATA-TATAAA
* *
94080 AATAATATGTATATATATATAAA
1 AATAATATATATAAATATATAAA
* *
94103 AA-ATTATAAATTAAATATAT
1 AATAATATATA-TAAATATAT
94123 GAAATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.14
23 16 0.44
24 15 0.42
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (23 bp):
AATAATATATATAAATATATAAA
Found at i:96193 original size:3 final size:3
Alignment explanation
Indices: 96181--96260 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
96171 TATATATATT
* * *
96181 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
96228 TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96261 ATAAATTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:100547 original size:30 final size:30
Alignment explanation
Indices: 100511--100643 Score: 239
Period size: 30 Copynumber: 4.4 Consensus size: 30
100501 TCCGAAGGAC
100511 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
100541 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
100571 CTATCAAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
100601 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
100631 CTGTCCATAGGTC
1 CTATCCAGAGGTC
100644 CCGAAGAACC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:100660 original size:30 final size:30
Alignment explanation
Indices: 100617--100710 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
100607 AGAGGTCATA
* * *
100617 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
100647 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
100678 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
100709 AA
1 AA
100711 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:100660 original size:60 final size:60
Alignment explanation
Indices: 100511--100668 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 60
100501 TCCGAAGGAC
* *
100511 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCAAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
*
100571 CTATCAAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCAAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * * * *
100631 CTGTCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCAAGAGGTCACAAAGATCCTCGGT-AACTATCCA
100669 TATGTTCCTT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 79 0.90
61 9 0.10
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (60 bp):
CTATCAAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:100717 original size:31 final size:30
Alignment explanation
Indices: 100626--100721 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
100616 AAAGATCCTC
* * *
100626 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
100656 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
100687 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
100718 GGTA
1 GGTA
100722 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:101946 original size:63 final size:63
Alignment explanation
Indices: 101790--101950 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
101780 TCTTTAGCAT
* * * * * * *
101790 GTGCATCGATGCAGTACCCGTGCATCGATGCACAAATCACCTTCGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCACTTCCTGTGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGAG
* * ** *
101853 GATGCATCGATGCAC-TCCTTATGCATCGATACACCAATTGCATTCGATGTTTCCATTTTAATAG
1 G-TGCATCGATGCACTTCC-TGTGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGAG
101917 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTTCCTGTGCATCGATACACA
101951 CTGAACAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 30 0.37
64 51 0.63
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCACTTCCTGTGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGAG
Found at i:102899 original size:21 final size:21
Alignment explanation
Indices: 102857--102899 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
102847 TTTATGGGCT
* *
102857 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
102878 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
102899 A
1 A
102900 ACGAGTATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:102952 original size:20 final size:20
Alignment explanation
Indices: 102927--102965 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
102917 GAATGCTAGA
*
102927 GGGGAATCGATACCCCCATG
1 GGGGAACCGATACCCCCATG
*
102947 GGGGAACCGATTCCCCCAT
1 GGGGAACCGATACCCCCAT
102966 AATGAAAAAA
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:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (20 bp):
GGGGAACCGATACCCCCATG
Found at i:103830 original size:31 final size:30
Alignment explanation
Indices: 103792--103887 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
103782 GTCAAAGAAC
103792 TACCTATGTCTTTCGAGACATATGGACAGT
1 TACCTATGTCTTTCGAGACATATGGACAGT
*** *
103822 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGACAG-T
* * *
103854 TACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TACCTATGTCT-TTCGAGACATATGGACAGT
103884 TACC
1 TACC
103888 GAGGATCTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.14
31 36 0.72
32 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGACAGT
Found at i:103904 original size:30 final size:30
Alignment explanation
Indices: 103870--104049 Score: 324
Period size: 30 Copynumber: 6.0 Consensus size: 30
103860 GGTTCTTCGG
* *
103870 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
103900 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
103930 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
103960 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
103990 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
104020 GACCTCTGGATAGTTACCGAAGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
104050 AGGTCCTTCG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 145 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:106178 original size:36 final size:36
Alignment explanation
Indices: 106131--106200 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
106121 AGGGTTCTAC
106131 GTGGTCCTTCGGGACACAGTGGTCCT-TCGGGACATA
1 GTGGTCCTTCGGGACACAGTGGTCCTGT-GGGACATA
* *
106167 GTGGTCCTTCGGGATATAGTGGTCCTGTGGGACA
1 GTGGTCCTTCGGGACACAGTGGTCCTGTGGGACA
106201 AATTCTATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.16, C:0.21, G:0.36, T:0.27
Consensus pattern (36 bp):
GTGGTCCTTCGGGACACAGTGGTCCTGTGGGACATA
Found at i:106198 original size:18 final size:18
Alignment explanation
Indices: 106131--106192 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
106121 AGGGTTCTAC
*
106131 GTGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACATA
106149 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
106167 GTGGTCCTTCGGGATATA
1 GTGGTCCTTCGGGACATA
106185 GTGGTCCT
1 GTGGTCCT
106193 GTGGGACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:106973 original size:51 final size:51
Alignment explanation
Indices: 106916--107023 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
106906 GTTAAAGAAT
* * *
106916 TACTTTATAGAATAGAAGTTTTAAATTTTTTATGGTTTTTATAAAATTATA
1 TACTTTATAGAATAGAAGTTTTAAATTTTCTATGGATTTTATAAAAGTATA
*
106967 TGCTTTATAGAATAGAAGTTTTAAATTTTCTATGGATTTTATAAAAGTATA
1 TACTTTATAGAATAGAAGTTTTAAATTTTCTATGGATTTTATAAAAGTATA
107018 TACTTT
1 TACTTT
107024 GACTGATCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (51 bp):
TACTTTATAGAATAGAAGTTTTAAATTTTCTATGGATTTTATAAAAGTATA
Found at i:113307 original size:20 final size:20
Alignment explanation
Indices: 113279--113317 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
113269 AAATAATCTA
113279 AAATAAATAATTTAATTTTT
1 AAATAAATAATTTAATTTTT
*
113299 AAATTAATAATTTAATTTT
1 AAATAAATAATTTAATTTT
113318 GATTTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAAATAATTTAATTTTT
Found at i:119778 original size:31 final size:29
Alignment explanation
Indices: 119740--119806 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 29
119730 ATATAAGAAA
119740 GGTGTCTAACATATGTTTTCGATTTCAGTTT
1 GGTGTCTAACATAT-TTTTCG-TTTCAGTTT
119771 GGTGTCT---ATATTTTTCGTTTCAGTTT
1 GGTGTCTAACATATTTTTCGTTTCAGTTT
*
119797 GGTATCTAAC
1 GGTGTCTAAC
119807 GTTCATTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 15 0.47
27 6 0.19
28 4 0.12
31 7 0.22
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.49
Consensus pattern (29 bp):
GGTGTCTAACATATTTTTCGTTTCAGTTT
Found at i:119791 original size:26 final size:28
Alignment explanation
Indices: 119750--119804 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
119740 GGTGTCTAAC
*
119750 ATATGTTTTCGATTTCAGTTTGGTGTCT
1 ATATGTTTTCGATTTCAGTTTGGTATCT
119778 ATAT-TTTTCG-TTTCAGTTTGGTATCT
1 ATATGTTTTCGATTTCAGTTTGGTATCT
119804 A
1 A
119805 ACGTTCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 16 0.62
27 6 0.23
28 4 0.15
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (28 bp):
ATATGTTTTCGATTTCAGTTTGGTATCT
Found at i:121295 original size:20 final size:20
Alignment explanation
Indices: 121270--121314 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
121260 TTGGGCATAT
121270 GTGCCCAGTTGGCTACTGAA
1 GTGCCCAGTTGGCTACTGAA
*
121290 GTGCCCAGTTGGCTATTGAA
1 GTGCCCAGTTGGCTACTGAA
121310 GTGCC
1 GTGCC
121315 TTGGCACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (20 bp):
GTGCCCAGTTGGCTACTGAA
Done.