genome.fa.s8105.2.7.7.80.10.50.1000.29.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  29  of  30  ( 3521 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)
5666838--5667092	120	2.1	120	95	2	460	49	19	11	20	1.79
5667347--5667399	19	2.8	20	80	8	65	1	5	43	49	1.37
5667344--5667395	25	2.1	25	96	0	95	1	7	40	50	1.42
5667354--5667462	32	3.5	31	79	9	116	8	6	34	50	1.58
5667444--5667634	6	31.7	6	79	3	141	7	4	43	44	1.52
5667569--5667650	18	4.5	18	76	3	65	10	7	40	41	1.68
5668436--5668803	2	188.0	2	66	19	136	44	4	3	47	1.40
5668500--5668684	89	2.1	90	89	3	284	43	4	2	48	1.38
5668639--5668678	13	2.9	13	88	7	53	40	5	7	47	1.54
5669894--5670011	20	5.8	20	78	8	94	38	22	19	20	1.94
5669959--5670167	20	10.4	20	79	8	156	39	24	17	18	1.91
5670017--5670167	40	3.8	40	89	5	182	37	25	16	20	1.93
5670859--5670905	24	2.0	24	87	8	69	25	14	21	38	1.92
5671080--5671104	12	2.1	12	100	0	50	72	0	28	0	0.86
5673388--5673592	34	5.8	34	73	15	159	45	17	22	14	1.85
5673402--5673586	53	3.5	53	93	1	318	46	17	21	14	1.83
5673402--5673592	19	10.7	19	75	18	196	45	17	21	15	1.85
5673563--5673678	53	2.2	52	84	3	151	19	22	18	38	1.93
5673582--5673698	53	2.2	53	96	1	218	14	23	17	44	1.86
5673601--5673698	19	5.4	19	84	13	143	14	22	17	45	1.84
5673805--5673841	14	2.6	14	91	0	65	45	21	0	32	1.52
5674728--5674791	20	3.2	20	82	4	92	46	15	25	12	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5674726--5674790	21	3.1	21	82	4	96	47	15	26	10	1.78
5674775--5674830	13	3.7	14	72	22	51	44	23	23	8	1.81
5674726--5674852	19	7.1	19	68	22	87	45	18	24	11	1.82
5674726--5674847	32	3.5	33	88	10	156	46	18	23	10	1.80
5674864--5674920	14	3.7	14	75	20	60	8	24	22	43	1.81
5674848--5674927	33	2.4	33	95	0	142	8	21	22	47	1.78
5674908--5674981	21	3.5	21	80	7	96	13	21	17	47	1.82
5675055--5675125	33	2.2	33	89	0	106	47	15	22	14	1.81
5675504--5675696	20	9.6	20	83	5	228	18	19	27	34	1.95
5677260--5677508	127	2.0	127	92	0	417	34	14	18	32	1.90
5677420--5677597	91	2.0	91	96	0	329	30	15	14	38	1.88
5678294--5678323	15	2.1	15	93	6	53	16	0	0	83	0.65
5678555--5678605	20	2.6	20	93	3	86	33	11	7	47	1.69
5680739--5680799	31	2.0	31	87	6	88	68	1	4	24	1.18
5680925--5680949	4	6.2	4	100	0	50	76	0	0	24	0.80
5681819--5683386	200	7.9	200	84	2	1897	26	20	19	33	1.97
5683453--5683759	42	7.2	42	62	20	127	19	23	25	31	1.98
5683449--5683819	86	4.3	86	94	0	636	19	23	26	30	1.98
5683514--5683829	42	7.4	42	64	20	163	19	22	26	31	1.98
5688346--5688440	31	3.1	31	87	0	136	34	20	18	26	1.96
5689501--5689546	24	1.9	24	100	0	92	41	15	13	30	1.85
5698359--5698560	43	4.7	43	77	14	184	29	16	22	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5698357--5698518	86	1.9	85	82	8	204	29	17	22	29	1.97
5698636--5698717	43	1.9	42	90	7	130	32	18	20	28	1.96
5698636--5698717	42	1.9	43	90	7	132	32	18	20	28	1.96
5704431--5704527	41	2.4	41	79	10	108	38	16	12	32	1.86
5704541--5704643	41	2.6	41	85	3	129	30	14	21	33	1.93
5705973--5706173	82	2.4	82	79	5	219	34	21	13	29	1.93
5707652--5707689	5	7.4	5	94	5	67	39	0	0	60	0.97
5713377--5713423	22	2.1	22	84	7	60	27	2	14	55	1.51
5729066--5729955	106	8.4	106	91	0	1338	33	24	18	23	1.97
5731779--5731829	24	2.1	24	82	13	61	33	0	3	62	1.13
5731779--5731839	32	1.9	32	89	0	95	34	0	3	62	1.12
5732081--5732116	16	2.3	15	86	9	54	27	2	0	69	1.02
5738775--5738802	2	14.0	2	100	0	56	50	0	0	50	1.00
5740183--5740396	66	3.4	65	72	16	234	35	27	15	21	1.94
5740179--5740524	121	2.9	121	93	0	575	34	26	16	22	1.95
5740579--5740789	85	2.5	86	86	1	307	36	22	18	22	1.95
5740579--5740818	85	2.8	84	83	3	300	35	22	17	23	1.95
5741035--5741087	15	3.5	16	76	23	53	28	0	1	69	0.99
5741032--5741084	24	2.2	24	80	12	65	28	0	1	69	0.99
5741035--5741087	23	2.4	22	81	12	63	28	0	1	69	0.99
5742446--5742500	27	2.0	27	92	0	92	45	3	12	38	1.60
5746385--5746420	18	2.0	18	88	0	54	13	27	33	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5752586--5752610	12	2.1	12	100	0	50	40	0	44	16	1.47
5752806--5752877	10	6.6	10	76	17	56	23	5	0	70	1.08
5757130--5757175	21	2.2	20	80	3	56	50	2	2	45	1.26
5761169--5761247	31	2.5	30	80	8	86	39	13	13	32	1.85
5762943--5763050	33	3.2	34	80	11	98	34	0	3	62	1.13
5762974--5763046	34	2.2	33	85	7	96	38	0	1	60	1.06
5763191--5763244	17	3.2	17	72	0	54	31	0	3	64	1.11
5764772--5764818	21	2.2	21	84	0	58	23	40	12	23	1.89
5764823--5764895	21	3.5	21	85	7	103	19	34	26	20	1.96
5765418--5765513	33	2.9	33	85	6	122	56	4	2	37	1.30
5765914--5766670	128	5.9	128	93	0	1257	32	19	24	23	1.98
5765914--5766670	384	2.0	384	96	0	1406	32	19	24	23	1.98
5766741--5766781	8	5.2	8	82	5	57	36	29	0	34	1.58
5773204--5773253	26	1.9	26	87	0	73	48	18	18	16	1.82
5773206--5773253	13	3.7	13	85	0	60	45	18	18	16	1.85
5773944--5774025	40	2.0	40	95	0	146	34	28	14	23	1.94
5780607--5780643	12	3.1	12	88	0	56	35	24	13	27	1.93
5780983--5781114	44	2.9	44	80	10	142	34	20	6	39	1.77
5797232--5797264	13	2.4	14	90	5	50	12	6	3	78	1.04
5814089--5814125	18	2.1	18	89	0	56	10	0	62	27	1.28
5814173--5814314	75	1.9	75	89	0	221	21	5	49	23	1.70
5814404--5814518	30	3.8	29	81	4	122	24	7	46	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5814400--5814518	60	2.0	60	85	9	163	23	7	46	22	1.77
5814303--5814481	96	1.9	96	79	0	205	22	7	43	26	1.79
5815746--5815788	21	2.0	21	100	0	86	23	34	13	27	1.93
5824319--5824641	161	2.0	162	95	4	591	32	19	17	29	1.95
5824754--5824796	22	2.0	22	95	0	77	48	6	13	30	1.69
5830426--5830473	16	2.9	16	76	14	53	56	14	12	16	1.68
5837813--5837914	50	2.0	50	100	0	204	35	24	15	24	1.94
5839812--5839837	2	13.0	2	100	0	52	50	0	50	0	1.00
5840965--5841031	29	2.3	29	97	0	125	13	35	26	23	1.92
5845712--5845740	14	2.1	14	100	0	58	41	20	24	13	1.89
5848339--5848391	21	2.8	18	80	8	61	60	0	9	30	1.28
5848500--5848524	11	2.3	11	100	0	50	68	0	0	32	0.90
5850163--5850220	23	2.7	21	76	7	55	20	22	18	37	1.94
5857385--5857460	20	3.8	20	96	0	134	27	26	21	25	1.99
5860756--5860782	8	3.4	8	100	0	54	66	0	11	22	1.22
5861921--5861955	15	2.2	16	95	5	63	31	14	0	54	1.40
5863309--5863401	42	2.2	42	80	3	107	19	19	23	37	1.94
5863864--5863902	16	2.5	15	83	4	51	64	2	30	2	1.21
5871629--5871960	30	11.1	29	76	9	287	59	9	12	18	1.59
5871634--5871966	122	2.8	120	81	10	362	59	9	12	18	1.60
5871629--5871960	92	3.7	89	80	7	352	59	9	12	18	1.59
5874098--5874206	21	5.2	21	94	0	182	20	22	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5874069--5874215	42	3.5	42	81	0	143	24	21	17	36	1.94
5874069--5874227	63	2.6	63	79	2	196	25	22	16	35	1.95
5874203--5874249	20	2.3	20	92	0	76	34	23	19	23	1.97
5874243--5874326	20	4.2	20	83	7	107	40	25	15	19	1.90
5874223--5874368	40	3.7	42	82	8	141	39	23	13	23	1.90
5874277--5874388	19	5.7	19	81	10	109	39	22	10	27	1.87
5874198--5874388	40	4.8	39	75	15	128	38	22	14	24	1.91
5874297--5874388	19	4.7	20	85	9	118	36	21	10	30	1.88
5874257--5874407	40	3.8	39	81	7	146	37	22	12	27	1.90
5874381--5874427	18	2.5	19	83	13	62	27	23	17	31	1.96

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