Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006191.1 Hibiscus syriacus cultivar Beakdansim tig00014731_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: 76142
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:7610 original size:24 final size:24
Alignment explanation
Indices: 7558--7615 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
7548 ACAGTCTGTA
*
7558 CTTTTACAGTAGACGAGGCTTGTG
1 CTTTTGCAGTAGACGAGGCTTGTG
* * *
7582 TTTTTGCAGTATACGAGGCTTTTG
1 CTTTTGCAGTAGACGAGGCTTGTG
7606 CTTTTGCAGT
1 CTTTTGCAGT
7616 GGATGAGTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (24 bp):
CTTTTGCAGTAGACGAGGCTTGTG
Found at i:10274 original size:19 final size:20
Alignment explanation
Indices: 10250--10288 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10240 AATGCAAATG
10250 AAAAAT-AAAAGAAAACAAA
1 AAAAATGAAAAGAAAACAAA
*
10269 AAAAATGAAAGGAAAACAAA
1 AAAAATGAAAAGAAAACAAA
10289 TTAGTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAATGAAAAGAAAACAAA
Found at i:14909 original size:10 final size:10
Alignment explanation
Indices: 14868--14927 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
14858 AAATAAAATA
14868 AATAAATAAT
1 AATAAATAAT
*
14878 AATATAGCCTAAT
1 AATA-A--ATAAT
14891 ATATAAAATAAT
1 A-AT-AAATAAT
14903 AATAAATAAT
1 AATAAATAAT
14913 -ATAAATAAT
1 AATAAATAAT
14922 AATAAA
1 AATAAA
14928 AACCTATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 9 0.21
10 16 0.38
11 3 0.07
12 5 0.12
13 5 0.12
14 3 0.07
15 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:14938 original size:22 final size:20
Alignment explanation
Indices: 14888--14929 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14878 AATATAGCCT
14888 AATATATAAAATAATAATAAA
1 AATATAT-AAATAATAATAAA
*
14909 TA-ATATAAATAATAATAAA
1 AATATATAAATAATAATAAA
14928 AA
1 AA
14930 CCTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 14 0.74
20 4 0.21
21 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATATATAAATAATAATAAA
Found at i:15048 original size:33 final size:32
Alignment explanation
Indices: 14999--15137 Score: 127
Period size: 33 Copynumber: 4.1 Consensus size: 32
14989 GTTAATATAT
14999 TTTCAAAAATGATTTTCAAAAACCATATTATACG
1 TTTCAAAAATG-TTTTC-AAAACCATATTATACG
* *
15033 -TTCAAAAATTGTTTTCAAAGCCATAATATACAG
1 TTTCAAAAA-TGTTTTCAAAACCATATTATAC-G
* * *
15066 TTTCCAAAATGTTTTCAAAATCATATACTATATG
1 TTTCAAAAATGTTTTCAAAACCATAT--TATACG
**
15100 TTTTCAAAAATGTTTAAAAAACCATATATTATACG
1 -TTTCAAAAATGTTTTCAAAACC--ATATTATACG
15135 TTT
1 TTT
15138 TCGAAACCGA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
32 13 0.15
33 28 0.33
34 13 0.15
35 27 0.32
37 4 0.05
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (32 bp):
TTTCAAAAATGTTTTCAAAACCATATTATACG
Found at i:15126 original size:35 final size:35
Alignment explanation
Indices: 14998--15139 Score: 109
Period size: 35 Copynumber: 4.1 Consensus size: 35
14988 TGTTAATATA
*
14998 TTTTCAAAAATGATTTTCAAAAACCATAT--TATACG
1 TTTTCAAAAATG--TTTAAAAAACCATATACTATACG
** *
15033 --TTCAAAAATTGTTTTCAAAGCCATA-A-TATACAG
1 TTTTCAAAAA-TGTTTAAAAAACCATATACTATAC-G
* ** * *
15066 -TTTCCAAAATGTTTTCAAAATCATATACTATATG
1 TTTTCAAAAATGTTTAAAAAACCATATACTATACG
*
15100 TTTTCAAAAATGTTTAAAAAACCATATATTATACG
1 TTTTCAAAAATGTTTAAAAAACCATATACTATACG
15135 TTTTC
1 TTTTC
15140 GAAACCGATT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
32 16 0.18
33 23 0.26
34 11 0.13
35 37 0.43
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (35 bp):
TTTTCAAAAATGTTTAAAAAACCATATACTATACG
Found at i:15163 original size:36 final size:36
Alignment explanation
Indices: 15117--15245 Score: 129
Period size: 36 Copynumber: 3.6 Consensus size: 36
15107 AAATGTTTAA
*
15117 AAAACCATATATTATACGTTTTCG-AAACCGATTTTT
1 AAAACTATATATTATAC-TTTTCGAAAACCGATTTTT
* * *
15153 AAAACTATATATTATACTTTTTGAAAACTGTTTTTT
1 AAAACTATATATTATACTTTTCGAAAACCGATTTTT
* ** *
15189 AAAACTATATATTATACATTTAAAAAACACG-TTTTC
1 AAAACTATATATTATACTTTTCGAAAAC-CGATTTTT
15225 AAAA-TATATACTATATACTTT
1 AAAACTATATA-T-TATACTTT
15246 AAAAAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
35 11 0.14
36 60 0.76
37 8 0.10
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (36 bp):
AAAACTATATATTATACTTTTCGAAAACCGATTTTT
Found at i:15264 original size:35 final size:34
Alignment explanation
Indices: 15149--15273 Score: 96
Period size: 36 Copynumber: 3.6 Consensus size: 34
15139 CGAAACCGAT
* ** *
15149 TTTTAAAACTATATATTATACTTTTTGAAAAC-TG
1 TTTTAAAA-TATATATTATACATTTAAAAAACACG
15183 TTTTTTAAAACTATATATTATACATTTAAAAAACACG
1 --TTTTAAAA-TATATATTATACATTTAAAAAACACG
*
15220 TTTTCAAAATATATACTATATAC-TTTAAAAAATTAC-
1 TTTT-AAAATATATA-T-TATACATTTAAAAAA-CACG
*
15256 TTTTAAAAT-TATTTTATA
1 TTTTAAAATATATATTATA
15274 TATATTATAC
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.05
33 1 0.01
34 3 0.04
35 15 0.19
36 47 0.60
37 8 0.10
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (34 bp):
TTTTAAAATATATATTATACATTTAAAAAACACG
Found at i:21145 original size:13 final size:14
Alignment explanation
Indices: 21119--21151 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
21109 TAGCACTGAC
21119 TAAAA-AATATAAA
1 TAAAATAATATAAA
21132 TAAAATAATA-AAA
1 TAAAATAATATAAA
21145 TAAAATA
1 TAAAATA
21152 GAGTAGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAATAATATAAA
Found at i:25161 original size:109 final size:109
Alignment explanation
Indices: 24974--25215 Score: 255
Period size: 109 Copynumber: 2.2 Consensus size: 109
24964 GTTAGCCGTG
* ** *
24974 TTTTTGCATTTTGGTCACCTGTGAGGACCAAATATGTTATTTACCTTTTTTTTCATGTATGTTAT
1 TTTTTGCATTTTGGTCA-CTGTAAGGACCAAATATGTTATTTACCTCCTTTTCCATGTATGTTAT
* *
25039 ATATTATTGGTATATTT-GTTGTTTAGTCCCCCATAGTTTAA-CGA-A
65 ATATTATTGGTATATTTACTT-TTTAGT-CCCCATAATTTAAGC-ATA
* *
25084 TTTTTGCACTTTGGTCACTGTAAGGACCAAATCTGTTATTTACC-CCTTTTCCATGCGTGATG-T
1 TTTTTGCATTTTGGTCACTGTAAGGACCAAATATGTTATTTACCTCCTTTTCCAT--GT-ATGTT
* *
25147 GTAT-TTAGTT-GTATATTTACTTTTTAGTCCTCATAATTTAAGCATA
63 ATATATTA-TTGGTATATTTACTTTTTAGTCCCCATAATTTAAGCATA
*
25193 TTTTTTCATTTTGGTCACATGTA
1 TTTTTGCATTTTGGTCAC-TGTA
25216 GTGATTATTT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
108 19 0.17
109 60 0.54
110 30 0.27
111 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (109 bp):
TTTTTGCATTTTGGTCACTGTAAGGACCAAATATGTTATTTACCTCCTTTTCCATGTATGTTATA
TATTATTGGTATATTTACTTTTTAGTCCCCATAATTTAAGCATA
Found at i:27038 original size:3 final size:3
Alignment explanation
Indices: 27032--27086 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
27022 TTATTTCATT
** * *
27032 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA ATA TTA TATA TTTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
27079 TTA TTA TT
1 TTA TTA TT
27087 TAACAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 37 0.88
4 4 0.10
5 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:28741 original size:9 final size:9
Alignment explanation
Indices: 28727--28759 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
28717 ATATCTTATG
28727 TAATTAATT
1 TAATTAATT
28736 TAATTAATT
1 TAATTAATT
*
28745 TTA-TAATT
1 TAATTAATT
28753 TAATTAA
1 TAATTAA
28760 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:31830 original size:8 final size:7
Alignment explanation
Indices: 31804--31891 Score: 58
Period size: 7 Copynumber: 12.4 Consensus size: 7
31794 CATTTACATT
31804 TTTTGCA
1 TTTTGCA
31811 TTTTGCA
1 TTTTGCA
31818 TTTTGCA
1 TTTTGCA
31825 TCTTTGCA
1 T-TTTGCA
*
31833 -TTTGTA
1 TTTTGCA
*
31839 TTTT-TA
1 TTTTGCA
31845 CTTTTGCA
1 -TTTTGCA
* *
31853 TTGTACA
1 TTTTGCA
*
31860 GTTTGCA
1 TTTTGCA
31867 TTATT--A
1 TT-TTGCA
31873 TTTTTGCA
1 -TTTTGCA
31881 TTTTCGCA
1 TTTT-GCA
31889 TTT
1 TTT
31892 ACATTACATT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
6 10 0.16
7 38 0.59
8 16 0.25
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (7 bp):
TTTTGCA
Found at i:31875 original size:34 final size:35
Alignment explanation
Indices: 31827--31894 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
31817 ATTTTGCATC
31827 TTTGCATTTGTATTTTTAC-TTTT-GCATTGTACAG
1 TTTGCATTTGTATTTTTACATTTTCGCATT-TACAG
*
31861 TTTGCATTAT-TATTTTTGCATTTTCGCATTTACA
1 TTTGCATT-TGTATTTTTACATTTTCGCATTTACA
31895 TTACATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 16 0.53
35 9 0.30
36 5 0.17
ACGTcount: A:0.19, C:0.13, G:0.12, T:0.56
Consensus pattern (35 bp):
TTTGCATTTGTATTTTTACATTTTCGCATTTACAG
Found at i:37124 original size:75 final size:75
Alignment explanation
Indices: 36992--37227 Score: 334
Period size: 75 Copynumber: 3.2 Consensus size: 75
36982 ACAAGAAGCA
* * ***
36992 AATGATGGAGCATGCTGAAAGCTCATTTCAATCATG-ATCAGGAATATTGACACATTTTGAACGA
1 AATGTTGGGGCATGCTGAAAGCTCATTTCAATCA-GAATCAGGAATATTGATGTATTTTGAACGA
*
37056 TTGAATTAGCT
65 TTGTATTAGCT
*
37067 AATTTTGGGGCATGCTGAAAGCTCATTTCAATCAGAATCAGGAATATTGATGTATTTTGAACGAT
1 AATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAATCAGGAATATTGATGTATTTTGAACGAT
*
37132 TGTATTAGTT
66 TGTATTAGCT
* * * *
37142 AATGTTGGGGGATGATGAAAGCTCATTTCAATTAGAATCAGGAATATTGATGT-TTTTGAATG-T
1 AATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAATCAGGAATATTGATGTATTTTGAACGAT
37205 TGTATTAGCT
66 TGTATTAGCT
37215 AATGTTGGGGCAT
1 AATGTTGGGGCAT
37228 ATTGAAGGCC
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
73 22 0.15
74 9 0.06
75 114 0.79
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (75 bp):
AATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAATCAGGAATATTGATGTATTTTGAACGAT
TGTATTAGCT
Found at i:38525 original size:22 final size:22
Alignment explanation
Indices: 38499--38562 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
38489 TATATCTACA
*
38499 CTCTTCAAAGATGACAGATTCT
1 CTCTTCAAAGATGAAAGATTCT
* *
38521 CTCTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGAAAGATTCT
* *
38543 CTTTTCAAAGAAGAAAGATT
1 CTCTTCAAAGATGAAAGATT
38563 TATTGAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (22 bp):
CTCTTCAAAGATGAAAGATTCT
Found at i:39318 original size:45 final size:45
Alignment explanation
Indices: 39267--39374 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
39257 TTTTTGATAT
* *
39267 TTTCAAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGG
1 TTTCAAAGCCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGG
* * * *
39312 TTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCAGGATGT
1 TTTCAAAGCCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGG
39357 TTTCAAAAAGCCTTCGGG
1 TTTC--AAAGCCTTCGGG
39375 AGCTTTATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 43 0.81
47 10 0.19
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
TTTCAAAGCCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGG
Found at i:39437 original size:121 final size:119
Alignment explanation
Indices: 39208--39493 Score: 410
Period size: 121 Copynumber: 2.4 Consensus size: 119
39198 CTATTTCCCA
* * * *
39208 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTC-AAAA-CCTTCGGGAGCTTTATGATATTTTCAA
* *
39273 AGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGGTTTCAAAACCTTCAGGT
64 AGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
39329 CATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTATGATATTTTTAA
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTC-AAAA-CCTTCGGGAGCTTTATGATATTTTCAA
* * * *
39394 AGCCTTCAGGTCATTTATAAGCCCTTCAGTGTATGTTGTTTTCAAAACCTTCGGGT
64 AGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
39450 CATCTGTAAGCCCTTCAGCGCATGATGTTTTCAAAACCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGG
39494 TTATCTGTAA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
119 8 0.05
120 4 0.03
121 139 0.92
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (119 bp):
CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGAGCTTTATGATATTTTCAAAG
CCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:39445 original size:45 final size:45
Alignment explanation
Indices: 39381--39575 Score: 264
Period size: 45 Copynumber: 4.3 Consensus size: 45
39371 CGGGAGCTTT
* * * * * * *
39381 ATGATATTTTTAAAGCCTTCAGGTCATTTATAAGCCCTTCAGTGT
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* *
39426 ATGTTGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGCGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
*
39471 ATGATGTTTTCAAAACCTTCGGGTTATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* * *
39516 ATGATGCTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
*
39561 AGGATGTTTTCAAAA
1 ATGATGTTTTCAAAA
39576 AGCCTTCAGG
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
Found at i:39630 original size:211 final size:211
Alignment explanation
Indices: 39261--40865 Score: 1571
Period size: 211 Copynumber: 7.5 Consensus size: 211
39251 GGGAGCTTTT
* * * * *
39261 TGATATTTTCAAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGGTTTCAAAACCTTCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
39326 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTC-GGGAGCTTTATGATATTT
66 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGTGAGATTT-TGATGTTT
* * * * * * *
39390 TTAAAGCCTTCAGGTCATTTATAAGCCCTTCAGTGTATGTTGTTTTCAAAACCTTCGGGTCATCT
130 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
*
39455 GTAAGCCCTTCAGCGCA
195 GTAAGCCCTTCAGTGCA
* *
39472 TGATGTTTTCAAAACCTTCGGGTTATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* **
39537 GGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAG-GAGATTTTTGACATTT
66 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGTGAGA-TTTTGATGTTT
*
39601 TCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
130 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
*
39666 GTAAGCTCTTCAGTGCA
195 GTAAGCCCTTCAGTGCA
39683 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * **** * * ** * * *
39748 GGAGCTTTCTGATATTTTC-AAAGACTTC-GG--GTCATCTATAAGCCCTTCAGTG-CA---TGA
66 GG-TC-ATCTG-TAAGCCCTACAG--TGCAGGATGTTTTCAAAAAG-CCTTCAGTGAGATTTTGA
39805 TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
125 TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
39870 CATCTGTAAGACCTTCAGTGCA
190 CATCTGTAAGCCCTTCAGTGCA
* * * *
39892 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGAAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTT
* * * **** * * ** *** * *
39957 CGGGAGC-TTTTTAATATTTTTAAAGCCTTC--GA-GTCATCTGTAAGCCCTTTAGTG-CA---T
64 CGGG-TCATCTGT-A-AGCCCTACAG--TGCAGGATGTTTTCAAAAAG-CCTTCAGTGAGATTTT
40014 GATGTTTTC-AAACACTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
123 GATGTTTTCAAAAC-CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
*
40078 GGTCATCTGTAAGCCCTTTAGTGCA
187 GGTCATCTGTAAGCCCTTCAGTGCA
* *
40103 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTT
* * * **** * * ** *** *
40168 CGGGAGCTTTTTGATATTTTC-AAAGCCTTC-GG--GTCATCTGTAAGCCCTTCAGTG-CA---T
64 CGGG-TC-ATCTG-TAAGCCCTACAG--TGCAGGATGTTTTCAAAAAG-CCTTCAGTGAGATTTT
* *
40225 GATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-A
123 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGG
*
40289 GTCATCTGTAAGCTCTTCAGTGCA
188 GTCATCTGTAAGCCCTTCAGTGCA
* *
40313 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCTCTTCAGTGCATGATATTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * * *
40378 GGTCATCTGTAAGCCCTTCAGTGCATGATATTTTC-AAAA-CCTTCGGGTCATCTGTAAGCCCTT
66 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCC-T----TCA---GTGAG--ATT
*
40441 CAGTGCATGATGTTTTCAAAACTTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
121 ---T---TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
40506 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
180 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40538 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* ** * * * * **
40603 GGTCATCTGTAAGCCCTTCAGTGCATAATATTTTCAAAACCTTCGAGCCATCTGTAATCCCTTCA
66 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAA------AGCCTTCAGTGA--GATT--
40668 GTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAC
121 -T---TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAC
*
40733 CTTC-GGTCATCTATAAGCCCTTCAGTGCA
182 CTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
40762 TGATGTTTTCAAAATCTTCGGGTTATCTGTTAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
40827 GGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAA
66 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAA
40866 CCTTCGGGTC
Statistics
Matches: 1235, Mismatches: 103, Indels: 99
0.86 0.07 0.07
Matches are distributed among these distances:
204 4 0.00
205 5 0.00
206 7 0.01
207 4 0.00
208 9 0.01
209 146 0.12
210 85 0.07
211 537 0.43
212 23 0.02
213 18 0.01
214 7 0.01
215 2 0.00
224 183 0.15
225 197 0.16
226 3 0.00
228 2 0.00
232 1 0.00
233 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (211 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGTGAGATTTTGATGTTTT
CAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
TAAGCCCTTCAGTGCA
Found at i:39649 original size:45 final size:45
Alignment explanation
Indices: 39598--39749 Score: 286
Period size: 45 Copynumber: 3.4 Consensus size: 45
39588 ATTTTTGACA
*
39598 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
*
39643 TTTTCAAAACCTTCGGGTCATCTGTAAGCTCTTCAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
39688 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
39733 TTTTCAAAACCTTCGGG
1 TTTTCAAAACCTTCGGG
39750 AGCTTTCTGA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 104 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
Found at i:39790 original size:119 final size:119
Alignment explanation
Indices: 39638--39868 Score: 419
Period size: 119 Copynumber: 1.9 Consensus size: 119
39628 CTTCAGTGCA
* * *
39638 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCTCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
39703 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGAGCTTTC
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGAGCTTTC
39757 TGATATTTTCAAAGA-CTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
1 TGATATTTTCAAA-ACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
39821 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
65 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
39869 TCATCTGTAA
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
119 107 0.99
120 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (119 bp):
TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGAGCTTTC
Found at i:39809 original size:74 final size:74
Alignment explanation
Indices: 39683--39823 Score: 248
Period size: 74 Copynumber: 1.9 Consensus size: 74
39673 CTTCAGTGCA
* *
39683 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
39748 GGAGCTTTC
66 GGAGCTTTC
39757 TGATATTTTCAAAGA-CTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
1 TGATATTTTCAAA-ACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
39821 GGG
65 GGG
39824 TCATCTGTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
74 63 0.98
75 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGAGCTTTC
Found at i:39813 original size:45 final size:45
Alignment explanation
Indices: 39757--39960 Score: 311
Period size: 45 Copynumber: 4.5 Consensus size: 45
39747 GGGAGCTTTC
*
39757 TGATATTTTCAAAGA-CTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAA-ACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
*
39802 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
* *
39847 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
* *
39892 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGAA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
*
39937 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
39961 AGCTTTTTAA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
44 1 0.01
45 135 0.91
46 4 0.03
47 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
Found at i:40038 original size:45 final size:45
Alignment explanation
Indices: 39973--40171 Score: 301
Period size: 45 Copynumber: 4.4 Consensus size: 45
39963 CTTTTTAATA
* * * *
39973 TTTTTAAAGCCTTCGAGTCATCTGTAAGCCCTTTAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
40018 TTTTC-AAACACTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAAC-CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
*
40063 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
* *
40108 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
40153 TTTTCAAAAAGCCTTCGGG
1 TTTTC-AAAA-CCTTCGGG
40172 AGCTTTTTGA
Statistics
Matches: 142, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
44 3 0.02
45 123 0.87
46 8 0.06
47 8 0.06
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
Found at i:40228 original size:45 final size:45
Alignment explanation
Indices: 40179--40922 Score: 1294
Period size: 45 Copynumber: 16.6 Consensus size: 45
40169 GGGAGCTTTT
* *
40179 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40224 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
40269 TGATGTTTTCAAAACCTTC-AGTCATCTGTAAGCTCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40313 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCTCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40358 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40403 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40448 TGATGTTTTCAAAACTTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40493 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40538 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40583 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * * *
40628 TAATATTTTCAAAACCTTCGAGCCATCTGTAATCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40673 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
40718 TGATGTTTTCAAAACCTTC-GGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
40762 TGATGTTTTCAAAATCTTCGGGTTATCTGTTAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
40807 TGATGTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40852 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
40897 TGATGTTTTCAAAACCTTCGGGTCAT
1 TGATGTTTTCAAAACCTTCGGGTCAT
40923 TCATAAGACT
Statistics
Matches: 665, Mismatches: 32, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
44 84 0.13
45 581 0.87
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:40234 original size:76 final size:74
Alignment explanation
Indices: 40103--40245 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 74
40093 CTTTAGTGCA
* *
40103 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATATTTTC-AAAA-CCTT
40168 CGGGAGCTTTT
64 CGGGAGCTTTT
* * *
40179 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATATTTTCAAAACCTTCG
40244 GG
66 GG
40246 TCATCTGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 8 0.13
75 4 0.06
76 50 0.81
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATATTTTCAAAACCTTCG
GGAGCTTTT
Found at i:40331 original size:25 final size:25
Alignment explanation
Indices: 40258--40331 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
40248 ATCTGTAAGC
40258 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
* *
40283 CCTTCAGT-CAT-CTG---T--AAG
1 CCTTCAGTGCATGATGTTTTCAAAA
40301 CTCTTCAGTGCATGATGTTTTCAAAA
1 C-CTTCAGTGCATGATGTTTTCAAAA
40327 CCTTC
1 CCTTC
40332 GGGTCATCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 3 0.08
19 7 0.19
20 4 0.11
21 2 0.05
23 2 0.05
24 4 0.11
25 12 0.32
26 3 0.08
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTCAAAA
Found at i:41087 original size:3 final size:3
Alignment explanation
Indices: 41081--41139 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
41071 ATATTTCATT
** * * *
41081 TTA TTA TTA TTA TTA AAA TTT TTA TTA TTA ATA TGA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
41126 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
41140 TAACAAATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 40 0.91
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:42795 original size:9 final size:9
Alignment explanation
Indices: 42781--42814 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
42771 ATATCTTATG
42781 TTAATTAAT
1 TTAATTAAT
42790 TTAATTAAT
1 TTAATTAAT
*
42799 TTTA-TAAT
1 TTAATTAAT
42807 TTAATTAA
1 TTAATTAA
42815 AGAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:44586 original size:17 final size:17
Alignment explanation
Indices: 44564--44596 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44554 GAGCATACTC
44564 TTAATATTTATTTATTT
1 TTAATATTTATTTATTT
*
44581 TTAATATTTTTTTATT
1 TTAATATTTATTTATT
44597 AGAGACTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTAATATTTATTTATTT
Found at i:45320 original size:17 final size:17
Alignment explanation
Indices: 45298--45331 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
45288 TTTAACATTT
45298 AGTAAT-AATAATTAATA
1 AGTAATAAATAA-TAATA
45315 AGTAATAAATAATAATA
1 AGTAATAAATAATAATA
45332 CTAATAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AGTAATAAATAATAATA
Found at i:46177 original size:40 final size:41
Alignment explanation
Indices: 46083--46390 Score: 239
Period size: 40 Copynumber: 7.6 Consensus size: 41
46073 TTAGCGGTGT
* * * * *
46083 TTTTTGAACAAACGTCGATAAATACTCGTACTTTAGTGTCG
1 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * *
46124 TTTTTATATAAACGCCGCTAAATA-TTGTAGTTTAGTGGCG
1 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * * *
46164 TTTTTGTACAAACGCCACTAAAGACTCGTAC-TTAGTGACG
1 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * * * * ** *
46204 CTTTTATATAAATGCTGCTAAATAC-TGTACTTTAACGGTG
1 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * ** *
46244 TTTTAAGCACAAACGCCAATAAATACTTGTACTTTAGTGAC-
1 TTTT-TGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * * *
46285 TTTTTATACAAACGCCGATAAAGACTCGTACTTTAGTGGCG
1 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* * * * *
46326 TTTTAAGCACAAACGCCGCTAAATA-TTATAGTTTAGTGGCA
1 TTTT-TGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
* *
46367 TTTGTGTACAAATGCCGCTAAATA
1 TTTTTGTACAAACGCCGCTAAATA
46391 TTTAGTCTTT
Statistics
Matches: 201, Mismatches: 60, Indels: 13
0.73 0.22 0.05
Matches are distributed among these distances:
39 4 0.02
40 113 0.56
41 59 0.29
42 25 0.12
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTGGCG
Found at i:46401 original size:82 final size:82
Alignment explanation
Indices: 46090--46388 Score: 205
Period size: 81 Copynumber: 3.7 Consensus size: 82
46080 TGTTTTTTGA
* * ** * * * * * * *
46090 ACAAACGTCGATAAATACTCGTACTTTAGTGTCGTTTTTATATAAACGCCGCTAAATA-TTGTAG
1 ACAAACGCCAATAAATACTTATACTTTAGTGAC-TTTGTATACAAACGCCGATAAAGACTAGTAC
* *
46154 TTTAGTGGCGTTTT-TGT
65 TTTAGTGGCGTTTTAAGC
* * ** * * * * *
46171 ACAAACGCCACTAAAGACTCGTAC-TTAGTGACGCTTT-TATATAAATGCTGCTAAATACT-GTA
1 ACAAACGCCAATAAATACTTATACTTTAGTGA--CTTTGTATACAAACGCCGATAAAGACTAGTA
** *
46233 CTTTAACGGTGTTTTAAGC
64 CTTTAGTGGCGTTTTAAGC
* * *
46252 ACAAACGCCAATAAATACTTGTACTTTAGTGACTTTTTATACAAACGCCGATAAAGACTCGTACT
1 ACAAACGCCAATAAATACTTATACTTTAGTGACTTTGTATACAAACGCCGATAAAGACTAGTACT
46317 TTAGTGGCGTTTTAAGC
66 TTAGTGGCGTTTTAAGC
** * * * * *
46334 ACAAACGCCGCTAAATA-TTATAGTTTAGTGGCATTTGTGTACAAATGCCGCTAAA
1 ACAAACGCCAATAAATACTTATACTTTAGTGAC-TTTGTATACAAACGCCGATAAA
46389 TATTTAGTCT
Statistics
Matches: 177, Mismatches: 33, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
80 42 0.24
81 75 0.42
82 60 0.34
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (82 bp):
ACAAACGCCAATAAATACTTATACTTTAGTGACTTTGTATACAAACGCCGATAAAGACTAGTACT
TTAGTGGCGTTTTAAGC
Found at i:50517 original size:21 final size:21
Alignment explanation
Indices: 50491--50547 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
50481 TTATTTGTTA
50491 TTATGGATTTCAAGTGTCTTG
1 TTATGGATTTCAAGTGTCTTG
* * *
50512 TTATGGATTTCAAATTTGTTG
1 TTATGGATTTCAAGTGTCTTG
*
50533 TTATGGATGTCAAGT
1 TTATGGATTTCAAGT
50548 TTATATGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (21 bp):
TTATGGATTTCAAGTGTCTTG
Found at i:54152 original size:43 final size:43
Alignment explanation
Indices: 54087--54176 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 43
54077 TATACTTCAT
*
54087 TATA-ATTTAAATTAGAGTAAACTATACCATTGACCACCCAAC
1 TATAGATTTAAATTAGAGTAAACTATACCAGTGACCACCCAAC
54129 TATAGATTTAAATTAGAGTAAACTATACCAGTGACCACCCAAC
1 TATAGATTTAAATTAGAGTAAACTATACCAGTGACCACCCAAC
54172 TATAG
1 TATAG
54177 TCCCTTTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (43 bp):
TATAGATTTAAATTAGAGTAAACTATACCAGTGACCACCCAAC
Found at i:55717 original size:30 final size:28
Alignment explanation
Indices: 55668--55742 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
55658 ACATCTAAAC
55668 ATTAAAAATATATTTTTATTATTACTCTTA
1 ATTAAAAATATA-TTTTATTATTA-TCTTA
* * *
55698 ACTTTAAAATATATTTTATTCTTATTTTA
1 A-TTAAAAATATATTTTATTATTATCTTA
55727 ATTAAAAATATATTTT
1 ATTAAAAATATATTTT
55743 CTATATCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.35
29 5 0.12
30 11 0.28
31 10 0.25
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTAAAAATATATTTTATTATTATCTTA
Found at i:55852 original size:29 final size:28
Alignment explanation
Indices: 55791--55860 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
55781 ATATTCTATC
* * * *
55791 AAAAATATATTTTATTTTTATTTACCTT
1 AAAAATATATTTTAATCTTATATAACTT
55819 -AAAATATATTTTAATCTTATCATAACTT
1 AAAAATATATTTTAATCTTAT-ATAACTT
55847 AAAAATATATTTTA
1 AAAAATATATTTTA
55861 TTTTTATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 18 0.50
28 5 0.14
29 13 0.36
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (28 bp):
AAAAATATATTTTAATCTTATATAACTT
Found at i:55867 original size:29 final size:29
Alignment explanation
Indices: 55791--55868 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
55781 ATATTCTATC
* *
55791 AAAAATATATTTTATTTTTAT-TTACCTT
1 AAAAATATATTTTATTTTTATCATAACTT
* *
55819 -AAAATATATTTTAATCTTATCATAACTT
1 AAAAATATATTTTATTTTTATCATAACTT
55847 AAAAATATATTTTATTTTTATC
1 AAAAATATATTTTATTTTTATC
55869 TTAGCTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.43
28 5 0.12
29 19 0.45
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (29 bp):
AAAAATATATTTTATTTTTATCATAACTT
Found at i:55947 original size:30 final size:30
Alignment explanation
Indices: 55913--55977 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
55903 ATTTTTTTAC
*
55913 ATATATTATATTCTTAACTTAAATTATTAA
1 ATATATTATAGTCTTAACTTAAATTATTAA
* *
55943 ATATATTCTAGTCTTACCTTAAATTATTAA
1 ATATATTATAGTCTTAACTTAAATTATTAA
55973 ATATA
1 ATATA
55978 ATTTATCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.48
Consensus pattern (30 bp):
ATATATTATAGTCTTAACTTAAATTATTAA
Found at i:56039 original size:31 final size:31
Alignment explanation
Indices: 55973--56055 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
55963 AAATTATTAA
* *
55973 ATATAATTTATCCTTA-TTTTAACATAAAAT
1 ATATATTTTATTCTTATTTTTAACATAAAAT
* *
56003 ATATATTTTATTCTTATTTTTAACTTAATAT
1 ATATATTTTATTCTTATTTTTAACATAAAAT
* *
56034 GTATATTTTATTTTTATTTTTA
1 ATATATTTTATTCTTATTTTTA
56056 TTTAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 14 0.30
31 32 0.70
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (31 bp):
ATATATTTTATTCTTATTTTTAACATAAAAT
Found at i:56215 original size:57 final size:57
Alignment explanation
Indices: 56127--56255 Score: 161
Period size: 57 Copynumber: 2.2 Consensus size: 57
56117 ATATTATTAG
* ** * *
56127 AATAAAATATAAATATTTAAGTTAAGGTAAGAATAAATTATTTTTTAAAGTTA-ATAAA
1 AATAAAATAT--ATTTTTAAGTTAAAATAAGAATAAAATATATTTTAAAGTTAGATAAA
*
56185 AATTAAAATATATTTTTAAGTTAAAATAAGAATAAAATATATTTTAAAGTTAGGATAAG
1 AA-TAAAATATATTTTTAAGTTAAAATAAGAATAAAATATATTTTAAAGTTA-GATAAA
56244 AATAAAATATAT
1 AATAAAATATAT
56256 AATTTTAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 36 0.58
58 12 0.19
59 14 0.23
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (57 bp):
AATAAAATATATTTTTAAGTTAAAATAAGAATAAAATATATTTTAAAGTTAGATAAA
Found at i:56254 original size:29 final size:29
Alignment explanation
Indices: 56125--56255 Score: 135
Period size: 29 Copynumber: 4.5 Consensus size: 29
56115 AAATATTATT
56125 AGAATAAAATATAAATATTT-AAGTTAAGG-TA
1 AGAATAAAATAT--AT-TTTAAAGTT-AGGATA
* *
56156 AGAATAAATTATTTTTTAAAGTTA--ATA
1 AGAATAAAATATATTTTAAAGTTAGGATA
* * **
56183 AAAATTAAAATATATTTTTAAGTTAAAATA
1 AGAA-TAAAATATATTTTAAAGTTAGGATA
56213 AGAATAAAATATATTTTAAAGTTAGGATA
1 AGAATAAAATATATTTTAAAGTTAGGATA
56242 AGAATAAAATATAT
1 AGAATAAAATATAT
56256 AATTTTAATG
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
27 5 0.06
28 21 0.25
29 42 0.49
30 6 0.07
31 11 0.13
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (29 bp):
AGAATAAAATATATTTTAAAGTTAGGATA
Found at i:57222 original size:23 final size:23
Alignment explanation
Indices: 57196--57240 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
57186 TAAACATAAA
57196 TTTAGATAAATATTAAATTATAG
1 TTTAGATAAATATTAAATTATAG
* * * *
57219 TTTATATGAATCTTGAATTATA
1 TTTAGATAAATATTAAATTATA
57241 ATTTTACTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
TTTAGATAAATATTAAATTATAG
Found at i:57335 original size:3 final size:3
Alignment explanation
Indices: 57327--57369 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
57317 CATTAGAAAA
* *
57327 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAC TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57370 AAAATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:57350 original size:15 final size:15
Alignment explanation
Indices: 57330--57369 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
57320 TAGAAAATAT
57330 TATTATTATTATTAC
1 TATTATTATTATTAC
57345 TATTATTATTATTAC
1 TATTATTATTATTAC
57360 TATTA-TATTA
1 TATTATTATTA
57370 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:57771 original size:4 final size:4
Alignment explanation
Indices: 57764--57850 Score: 75
Period size: 4 Copynumber: 21.8 Consensus size: 4
57754 TTAATTGTCT
* * * * * *
57764 TCTC TCTC CCTC TCTC CCTC TCTC CCTC CCTC TCTC TCTC CCTC CCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * *
57812 CCTC CCTC TCTC TCTC TCTC CCTC TCTG TTTC TCTC TCT
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCT
57851 TTATTCTCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.00, C:0.57, G:0.01, T:0.41
Consensus pattern (4 bp):
TCTC
Found at i:57778 original size:8 final size:8
Alignment explanation
Indices: 57765--57838 Score: 85
Period size: 8 Copynumber: 8.8 Consensus size: 8
57755 TAATTGTCTT
57765 CTCTCTCC
1 CTCTCTCC
57773 CTCTCTCC
1 CTCTCTCC
57781 CTCTCTCC
1 CTCTCTCC
57789 CTCCCTCTCTC
1 CT--CTCTC-C
*
57800 TCTCCCTCC
1 -CTCTCTCC
*
57809 CTCCCTCC
1 CTCTCTCC
*
57817 CTCTCTCT
1 CTCTCTCC
57825 CTCTCTCC
1 CTCTCTCC
57833 CTCTCT
1 CTCTCT
57839 GTTTCTCTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
8 45 0.78
9 1 0.02
10 9 0.16
11 1 0.02
12 2 0.03
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (8 bp):
CTCTCTCC
Found at i:57847 original size:16 final size:16
Alignment explanation
Indices: 57764--57838 Score: 104
Period size: 16 Copynumber: 4.9 Consensus size: 16
57754 TTAATTGTCT
57764 TCTCTCTCCCTCTCTC
1 TCTCTCTCCCTCTCTC
* *
57780 CCTCTCTCCCTCCCTC
1 TCTCTCTCCCTCTCTC
57796 TCTCTCTCCCTC-C-C
1 TCTCTCTCCCTCTCTC
57810 TC-C-CTCCCTCTCTC
1 TCTCTCTCCCTCTCTC
57824 TCTCTCTCCCTCTCT
1 TCTCTCTCCCTCTCT
57839 GTTTCTCTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
12 7 0.13
13 2 0.04
14 6 0.12
15 2 0.04
16 35 0.67
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (16 bp):
TCTCTCTCCCTCTCTC
Found at i:57850 original size:24 final size:24
Alignment explanation
Indices: 57773--57835 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
57763 TTCTCTCTCC
*
57773 CTCTCTCCCTCTCTCCCTCCCTCT
1 CTCTCTCCCTCCCTCCCTCCCTCT
57797 CTCTCTCCCTCCCTCCCTCCCTCT
1 CTCTCTCCCTCCCTCCCTCCCTCT
*
57821 CTCTCTCTCTCCCTC
1 CTCTCTCCCTCCCTC
57836 TCTGTTTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (24 bp):
CTCTCTCCCTCCCTCCCTCCCTCT
Found at i:64552 original size:2 final size:2
Alignment explanation
Indices: 64547--64604 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
64537 AATAAATCAA
64547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64589 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
64605 CAATCAATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65767 original size:17 final size:17
Alignment explanation
Indices: 65741--65776 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65731 TTGCATAATT
* *
65741 TTTTCTTTTTTTGTTTA
1 TTTTCCTTTTATGTTTA
65758 TTTTCCTTTTATGTTTA
1 TTTTCCTTTTATGTTTA
65775 TT
1 TT
65777 GTTTAGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTCCTTTTATGTTTA
Found at i:70112 original size:18 final size:16
Alignment explanation
Indices: 70078--70116 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
70068 AATATATATC
70078 AAAAATAAAAAACATA
1 AAAAATAAAAAACATA
*
70094 AAAAATATAGAAAAGATA
1 AAAAATA-A-AAAACATA
70112 AAAAA
1 AAAAA
70117 AGAAGAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAATAAAAAACATA
Found at i:70147 original size:22 final size:22
Alignment explanation
Indices: 70119--70185 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
70109 ATAAAAAAAG
* *
70119 AAGAGAGGGAAAAGTAAGCAAA
1 AAGAGAGAGAAAAGAAAGCAAA
*
70141 AAGAGAGAGAAAGGAAAGCAAA
1 AAGAGAGAGAAAAGAAAGCAAA
* *
70163 AAGGAGAAAAAAAAGAAAG-AAA
1 AA-GAGAGAGAAAAGAAAGCAAA
70185 A
1 A
70186 CATATCAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 25 0.66
23 13 0.34
ACGTcount: A:0.67, C:0.03, G:0.28, T:0.01
Consensus pattern (22 bp):
AAGAGAGAGAAAAGAAAGCAAA
Found at i:75677 original size:4 final size:4
Alignment explanation
Indices: 75668--75737 Score: 72
Period size: 4 Copynumber: 16.5 Consensus size: 4
75658 CAAAAAATAA
75668 AAAT AAAT AAAT AAAT AAAT AATAT AAAT AATAT AAA- ATAAT AAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AA-AT AAAT A-AAT AAAT AAAT
75717 AATAT AAAT AATAT ATAAT AA
1 AA-AT AAAT AA-AT A-AAT AA
75738 GAACTATATA
Statistics
Matches: 58, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
3 4 0.07
4 34 0.59
5 19 0.33
6 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:75727 original size:29 final size:29
Alignment explanation
Indices: 75672--75752 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
75662 AAATAAAAAT
75672 AAATAAATAAATAAATAATATAAATAATATA
1 AAAT-AATAAAT-AATAATATAAATAATATA
75703 AAATAATAAATAATAATATAAATAATATA
1 AAATAATAAATAATAATATAAATAATATA
* * *
75732 TAATAAGAACTATATAATATA
1 AAATAATAAATA-ATAATATA
75753 TATTAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.59
30 15 0.33
31 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
AAATAATAAATAATAATATAAATAATATA
Found at i:75781 original size:13 final size:13
Alignment explanation
Indices: 75765--75791 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75755 TTAAAAAATT
75765 ATATGTTTTCAAA
1 ATATGTTTTCAAA
75778 ATATGTTTTCAAA
1 ATATGTTTTCAAA
75791 A
1 A
75792 CTATATTATA
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:75857 original size:14 final size:14
Alignment explanation
Indices: 75838--75864 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75828 TATATATATA
75838 TACGTTTTCAAAAG
1 TACGTTTTCAAAAG
75852 TACGTTTTCAAAA
1 TACGTTTTCAAAA
75865 CTAATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
TACGTTTTCAAAAG
Found at i:75865 original size:38 final size:36
Alignment explanation
Indices: 75764--75930 Score: 182
Period size: 38 Copynumber: 4.6 Consensus size: 36
75754 ATTAAAAAAT
*
75764 TATATGTTTTCAAAATATGTTTTCAAAACTATATTA
1 TATATGTTTTCAAAATACGTTTTCAAAACTATATTA
*
75800 TATATGTTTT-AAAA-ACCGTTTTTAAAACTATATATA
1 TATATGTTTTCAAAATA-CGTTTTCAAAACTATAT-TA
* *
75836 TATACGTTTTCAAAAGTACGTTTTCAAAACTAATATAA
1 TATATGTTTTCAAAA-TACGTTTTCAAAACT-ATATTA
** *
75874 TATATGTTTTCAAAATGTGTTTTCAAAACCATATTA
1 TATATGTTTTCAAAATACGTTTTCAAAACTATATTA
*
75910 -A-ATATTTTCAAAA-ACCGTTTT
1 TATATGTTTTCAAAATA-CGTTTT
75931 TTAAAAATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
34 17 0.15
35 20 0.18
36 26 0.23
37 16 0.14
38 27 0.24
39 5 0.05
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (36 bp):
TATATGTTTTCAAAATACGTTTTCAAAACTATATTA
Found at i:75896 original size:37 final size:36
Alignment explanation
Indices: 75764--75960 Score: 172
Period size: 36 Copynumber: 5.4 Consensus size: 36
75754 ATTAAAAAAT
* *
75764 TATATGTTTTCAAAATATGTTTTCAAAACTATATTA
1 TATATGTTTTCAAAATGTGTTTTCAAAACTATATAA
* *
75800 TATATGTTTTAAAAACCGT-TTTT-AAAACTATATATA
1 TATATGTTTTCAAAA-TGTGTTTTCAAAACTATATA-A
*
75836 TATACGTTTTCAAAA-GTACGTTTTCAAAACTAATATAA
1 TATATGTTTTCAAAATGT--GTTTTCAAAACT-ATATAA
*
75874 TATATGTTTTCAAAATGTGTTTTCAAAACCATATTAA
1 TATATGTTTTCAAAATGTGTTTTCAAAACTATA-TAA
* * * * *
75911 -ATA--TTTTCAAAAACCGTTTTTTAAAAATTATATAT
1 TATATGTTTTC-AAAA-TGTGTTTTCAAAACTATATAA
*
75946 TATATGCTTTCAAAA
1 TATATGTTTTCAAAA
75961 ATGACCATCC
Statistics
Matches: 132, Mismatches: 15, Indels: 27
0.76 0.09 0.16
Matches are distributed among these distances:
34 7 0.05
35 16 0.12
36 54 0.41
37 23 0.17
38 25 0.19
39 7 0.05
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (36 bp):
TATATGTTTTCAAAATGTGTTTTCAAAACTATATAA
Done.