genome.fa.s8356.2.7.7.80.10.50.1000.54.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  54  of  56  ( 6656 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12373334--12373440	34	3.1	34	86	0	151	36	4	4	54	1.42
12373961--12374054	21	4.5	21	84	7	111	22	25	34	18	1.96
12373999--12374063	21	3.1	21	91	4	96	23	24	32	20	1.98
12374060--12374099	21	1.9	21	84	0	53	25	15	35	25	1.94
12375829--12375917	34	2.7	31	77	6	88	57	2	0	40	1.11
12375832--12375906	31	2.4	33	77	11	84	57	1	0	41	1.07
12376112--12376215	51	2.0	51	81	3	120	21	29	31	17	1.96
12380179--12380436	141	1.8	140	82	3	329	32	14	15	37	1.88
12382237--12382308	26	2.8	26	91	0	90	27	20	6	44	1.77
12382254--12382309	26	2.0	29	90	10	91	26	21	7	44	1.78
12388783--12388861	3	26.3	3	94	0	140	67	0	1	31	0.99
12392268--12392329	23	2.7	23	87	2	81	20	24	30	24	1.99
12396135--12396174	21	1.9	21	85	10	55	35	10	2	52	1.48
12400378--12400441	22	2.9	22	88	0	101	26	20	23	29	1.99
12401999--12402255	140	1.8	140	86	3	374	31	14	15	38	1.88
12403822--12403880	31	1.9	31	92	0	100	40	6	10	42	1.65
12403907--12403955	22	2.2	22	85	3	62	55	12	0	32	1.37
12403895--12404237	54	6.4	54	78	11	364	53	12	0	34	1.39
12403910--12404139	80	2.9	79	96	1	415	53	13	0	33	1.41
12403964--12404036	22	3.3	22	66	19	53	54	16	0	28	1.42
12404041--12404115	22	3.2	22	75	14	69	54	16	0	29	1.42
12404087--12404193	32	3.7	32	76	23	144	52	12	0	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12404119--12404161	22	2.0	22	95	0	77	51	11	0	37	1.39
12404121--12404169	22	2.2	22	85	3	62	55	12	0	32	1.37
12404173--12404273	22	4.5	22	69	7	76	51	8	0	38	1.40
12404218--12404395	15	11.5	15	83	8	223	50	2	0	47	1.18
12404163--12404395	75	3.3	67	80	12	220	50	4	0	44	1.25
12406300--12406347	21	2.4	20	83	10	62	25	22	25	27	2.00
12406595--12406647	21	2.5	22	85	8	67	37	18	13	30	1.89
12406593--12406647	20	2.7	21	83	8	69	38	18	14	29	1.90
12410028--12410140	60	1.9	60	86	0	163	36	14	11	38	1.82
12410628--12410680	23	2.3	23	77	6	54	54	1	1	41	1.22
12410655--12410722	30	2.2	32	84	5	86	45	4	2	47	1.38
12412226--12412300	38	2.0	38	94	0	132	38	36	10	14	1.81
12415895--12415940	21	2.1	22	84	4	58	36	0	15	47	1.45
12418156--12418290	71	1.9	71	85	0	189	28	11	25	33	1.92
12419726--12419776	26	2.0	26	88	0	75	25	23	23	27	2.00
12429314--12429346	6	5.5	6	92	0	57	81	0	3	15	0.80
12431069--12431103	19	1.9	17	88	11	52	31	22	25	20	1.98
12431094--12431201	45	2.4	46	89	7	159	29	18	24	27	1.98
12431247--12431284	20	1.9	20	88	0	58	18	13	34	34	1.89
12431579--12431636	12	4.6	13	78	8	66	41	3	8	46	1.51
12431579--12431636	25	2.3	25	100	0	116	41	3	8	46	1.51
12439615--12439773	64	2.5	62	82	12	180	28	16	22	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12439784--12439821	20	1.9	20	88	0	58	21	15	31	31	1.94
12454821--12454922	43	2.4	43	88	0	141	29	15	27	27	1.96
12454884--12455242	131	2.7	133	83	4	413	25	17	30	27	1.97
12455349--12455398	26	1.9	26	87	0	73	44	14	16	26	1.85
12456807--12456854	1	48.0	1	78	0	51	0	10	0	89	0.48
12456808--12456851	6	7.8	6	90	10	67	0	11	0	88	0.51
12456808--12456858	15	3.2	16	88	5	77	0	11	0	88	0.52
12460314--12460345	16	2.1	15	94	5	55	59	6	15	18	1.57
12465874--12465938	30	2.2	30	86	5	87	49	4	18	27	1.67
12472723--12472747	11	2.3	11	100	0	50	0	8	16	76	1.02
12478772--12478856	31	2.9	29	81	8	109	43	5	16	34	1.72
12479882--12479928	24	2.0	24	87	8	69	29	10	14	44	1.79
12498330--12498359	9	3.3	9	100	0	60	76	10	0	13	1.01
12498579--12498683	37	3.0	36	81	13	123	68	1	4	24	1.19
12498710--12498765	2	28.5	2	87	10	80	51	0	3	44	1.18
12498726--12498780	29	2.0	29	85	7	78	56	1	3	38	1.28
12498716--12498789	16	5.1	14	75	15	53	56	1	2	39	1.22
12498809--12498839	14	2.2	14	94	0	53	74	0	0	25	0.82
12501131--12501314	65	2.7	67	80	6	196	38	8	20	32	1.83
12501275--12501495	36	6.3	36	74	13	192	40	13	18	28	1.88
12501294--12501373	37	2.2	36	86	2	106	42	17	17	22	1.89
12501221--12501480	138	1.9	138	87	3	380	41	12	18	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12501309--12501581	101	2.7	101	83	2	305	39	12	18	29	1.87
12501516--12501587	37	1.9	37	88	0	108	40	11	20	27	1.87
12503190--12503246	29	2.0	28	87	12	82	28	8	3	59	1.44
12503589--12503969	137	2.8	139	80	4	421	30	13	13	41	1.83
12507174--12507224	18	2.7	19	85	11	70	78	1	13	5	1.02
12507211--12507263	13	4.2	13	83	13	67	79	0	18	1	0.83
12507217--12507269	20	2.7	21	85	8	67	79	0	18	1	0.83
12507168--12507263	33	2.9	33	79	14	108	77	1	17	4	0.99
12507191--12507270	24	3.4	23	76	22	78	80	1	16	2	0.90
12508011--12508113	28	3.7	28	90	2	163	40	35	0	22	1.61
12509414--12509566	62	2.6	58	79	10	191	35	8	15	41	1.77
12509694--12510993	240	5.4	239	86	2	1635	31	17	15	35	1.91
12510434--12510538	42	2.5	41	84	3	129	25	25	20	28	1.99
12509694--12511034	479	2.8	475	84	3	1695	31	17	16	35	1.92
12511602--12511850	116	2.1	116	88	2	365	34	16	22	26	1.95
12511720--12512119	203	2.0	202	84	3	527	34	17	19	28	1.95
12512374--12512622	116	2.1	116	88	2	365	34	16	22	26	1.95
12512492--12512891	203	2.0	202	84	3	527	34	17	19	28	1.95
12511427--12512970	772	2.0	772	100	0	3088	34	18	19	27	1.95
12512896--12512973	40	2.0	40	81	0	93	26	29	20	23	1.99
12515055--12515433	137	2.7	138	84	4	453	30	14	13	41	1.84
12517442--12517681	2	127.5	2	69	26	154	52	4	1	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12517440--12517681	12	21.6	11	73	22	177	52	4	1	41	1.30
12523435--12524497	4	267.8	4	97	1	1818	49	27	0	22	1.50
12523530--12523624	10	9.5	10	90	0	118	50	41	0	8	1.33
12524820--12524946	35	3.5	35	82	5	130	33	19	11	35	1.88
12525122--12525179	30	1.9	30	86	6	82	24	25	13	36	1.92
12525213--12525279	34	2.0	34	91	5	109	34	19	10	35	1.86
12525419--12525539	44	2.8	43	72	10	113	33	21	21	23	1.98
12526761--12526791	11	2.8	11	95	0	53	3	32	0	64	1.09
12529599--12529818	118	1.9	118	87	0	323	62	6	13	17	1.52
12529550--12529822	30	9.2	30	80	4	293	61	7	13	17	1.55
12531531--12531888	130	2.7	131	79	5	373	25	17	31	25	1.97
12531888--12532146	65	4.0	65	86	2	333	40	16	19	23	1.90
12532230--12532328	36	2.7	35	81	10	110	35	12	15	37	1.84
12533673--12533699	2	13.5	2	100	0	54	48	0	0	51	1.00
12535144--12535215	3	24.0	3	100	0	144	66	0	0	33	0.92
12540284--12540326	14	3.0	14	80	6	50	67	4	9	18	1.36
12547045--12547114	33	2.1	33	94	0	122	25	20	22	31	1.98
12554206--12554243	17	2.2	18	85	4	51	34	13	10	42	1.78
12554300--12554344	18	2.5	18	88	0	63	33	6	15	44	1.73
12557152--12557189	17	2.2	18	85	4	51	34	13	10	42	1.78
12557245--12557290	18	2.6	18	92	0	74	32	6	13	47	1.68
12560091--12560129	17	2.2	18	86	4	53	35	12	10	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12560151--12560196	18	2.6	18	92	0	74	32	6	13	47	1.68
12563007--12563046	17	2.4	17	86	0	53	37	15	7	40	1.75
12563102--12563147	18	2.6	18	92	0	74	32	6	13	47	1.68
12566055--12566100	18	2.6	18	92	0	74	32	6	13	47	1.68
12567849--12567896	20	2.3	21	85	7	71	41	0	0	58	0.98
12568225--12568268	20	2.1	21	91	4	72	20	9	4	65	1.38
12568918--12568943	7	3.7	7	100	0	52	88	0	0	11	0.52
12570364--12570950	290	2.0	293	85	4	794	36	10	9	44	1.70
12571214--12571319	16	6.6	16	75	14	76	36	0	1	60	1.14
12587212--12587245	2	17.0	2	88	11	52	47	2	0	50	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56