genome.fa.s8747.2.7.7.80.10.50.1000.40.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  40  of  51  ( 6054 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)
10114745--10114785	20	2.0	20	86	9	57	17	9	14	58	1.62
10117264--10117332	30	2.3	30	92	2	113	28	30	2	37	1.72
10117493--10117661	59	2.8	60	88	1	234	42	5	21	30	1.77
10122089--10122122	13	2.5	13	90	4	50	23	14	5	55	1.61
10124258--10124308	21	2.4	21	96	0	93	21	15	27	35	1.94
10124582--10124617	18	2.0	18	88	0	54	41	19	16	22	1.90
10130444--10131004	282	2.0	279	97	2	1063	35	9	21	33	1.86
10131026--10131060	17	2.1	17	88	0	52	28	11	28	31	1.92
10140374--10140469	30	3.1	31	80	8	115	28	0	43	28	1.55
10140497--10140543	19	2.5	19	79	6	51	53	2	21	23	1.57
10145102--10145264	81	2.0	81	100	0	326	39	15	22	22	1.92
10146661--10146784	62	2.0	62	95	0	221	39	20	13	26	1.90
10152557--10152672	29	4.0	29	90	0	169	27	22	6	43	1.79
10153061--10153287	47	4.8	47	87	2	321	20	22	14	42	1.88
10153261--10153304	20	2.2	20	95	0	79	20	31	13	34	1.92
10153207--10153354	67	2.2	67	90	0	224	20	24	14	41	1.89
10153160--10153397	114	2.1	114	92	1	388	20	24	14	40	1.89
10153120--10153434	161	2.0	161	88	0	477	20	22	14	43	1.87
10153274--10153683	47	8.7	47	89	0	604	20	22	14	42	1.88
10153073--10153811	208	3.4	206	76	13	632	20	22	14	43	1.87
10153462--10153542	20	3.7	20	70	20	63	19	28	13	38	1.90
10153610--10153703	20	4.3	20	72	21	73	20	25	14	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10153563--10153797	114	2.1	114	92	0	389	20	22	14	42	1.88
10153516--10153811	161	1.8	161	93	0	511	20	21	14	43	1.88
10153610--10153750	67	2.1	67	95	0	255	19	24	15	40	1.90
10153690--10153811	27	5.0	27	62	28	85	19	21	15	43	1.88
10153677--10153811	47	2.9	47	93	0	234	20	21	14	43	1.87
10154213--10154267	22	2.7	20	78	10	65	25	27	16	30	1.96
10156184--10156208	2	12.5	2	100	0	50	48	0	0	52	1.00
10158043--10158187	29	5.0	29	92	1	238	25	22	8	43	1.81
10158579--10158803	47	4.8	47	91	0	351	20	24	12	43	1.86
10158605--10158691	27	3.5	26	69	26	80	19	25	13	41	1.88
10158639--10158711	20	3.3	20	68	23	56	19	27	15	38	1.91
10158584--10158870	67	4.2	67	68	17	219	21	24	11	42	1.85
10158772--10158823	20	2.6	20	96	0	95	25	30	5	38	1.79
10158678--10158917	114	2.1	114	91	3	385	21	24	10	43	1.84
10158792--10159731	47	20.0	47	91	0	1486	20	21	14	43	1.87
10158631--10158964	161	2.1	161	89	0	506	20	23	12	43	1.86
10158906--10159361	27	19.2	27	61	26	158	19	21	15	43	1.87
10159128--10159201	20	3.3	20	67	22	58	20	24	14	40	1.90
10159450--10159577	20	5.7	20	67	24	69	18	25	14	40	1.89
10160132--10160228	22	4.7	20	71	9	77	28	27	13	29	1.94
10160132--10160228	42	2.3	42	92	0	158	28	27	13	29	1.94
10161578--10161945	131	2.8	131	87	1	533	32	12	15	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10162910--10163016	3	37.0	3	83	10	143	33	0	0	64	1.06
10164446--10164767	154	2.1	154	80	10	363	40	5	7	46	1.55
10165299--10165336	12	3.2	12	82	14	51	21	0	2	76	0.91
10172324--10172349	9	2.9	9	100	0	52	23	11	0	65	1.25
10175839--10175895	17	3.6	16	86	6	80	80	0	14	5	0.87
10175852--10175881	9	3.2	9	90	9	51	86	0	10	3	0.67
10175845--10175896	15	3.4	14	80	17	59	80	0	11	7	0.89
10176256--10176311	18	3.1	18	97	0	103	35	10	1	51	1.47
10176934--10177018	22	3.9	22	90	0	125	35	15	14	35	1.87
10177395--10178242	122	6.9	122	87	3	1100	39	13	18	27	1.89
10177775--10177834	17	3.2	17	70	20	57	48	6	21	23	1.74
10177779--10177842	20	3.2	20	65	12	60	42	9	20	28	1.83
10178429--10178512	3	27.0	3	83	11	107	29	3	0	66	1.08
10186576--10190951	6	747.7	6	86	10	5723	33	1	17	47	1.58
10195168--10195528	129	2.8	129	87	3	512	32	11	17	38	1.86
10195726--10195762	16	2.3	16	95	0	65	48	10	8	32	1.67
10195896--10195938	18	2.3	18	84	8	50	44	0	4	51	1.22
10196851--10196946	50	1.9	50	89	4	149	35	20	17	26	1.95
10197820--10197919	51	2.0	51	88	4	148	38	4	4	54	1.38
10199714--10199920	75	2.8	75	91	2	319	22	16	17	42	1.88
10201520--10201551	13	2.4	14	94	5	57	37	21	12	28	1.90
10202426--10202485	27	2.2	28	82	8	70	55	21	3	20	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10202686--10202725	2	20.0	2	100	0	80	50	0	0	50	1.00
10205472--10205510	19	2.0	20	90	5	62	43	20	7	28	1.79
10205321--10205883	211	2.8	204	92	5	934	36	14	14	35	1.86
10205683--10205721	19	2.0	20	90	5	62	43	20	7	28	1.79
10205884--10206143	4	65.2	4	90	0	378	0	5	49	45	1.27
10205884--10206143	6	43.5	6	91	0	378	0	5	49	45	1.27
10205884--10206143	10	26.1	10	93	0	378	0	5	49	45	1.27
10206278--10206317	20	2.0	20	100	0	80	35	20	10	35	1.86
10208834--10208872	15	2.5	15	83	8	51	56	0	2	41	1.13
10208893--10208930	16	2.4	16	82	4	51	63	0	5	31	1.17
10208861--10208921	24	2.6	22	84	7	68	63	1	4	29	1.24
10209013--10209045	12	2.8	12	95	0	57	78	0	0	21	0.75
10209096--10209181	11	7.3	11	72	21	50	59	2	3	34	1.27
10209627--10209726	35	2.8	36	84	6	121	32	15	14	39	1.86
10210187--10210746	109	5.3	105	80	6	535	23	20	23	32	1.98
10210747--10211050	160	1.9	160	95	1	547	21	21	24	33	1.97
10211417--10211646	103	2.2	103	81	3	259	40	14	20	24	1.90
10211517--10211602	37	2.3	37	82	4	102	40	15	20	23	1.90
10211552--10211733	65	2.8	65	92	0	301	36	13	20	30	1.91
10211617--10211954	102	3.3	102	94	0	595	36	13	20	29	1.90
10211682--10211954	37	7.9	37	66	19	176	36	13	20	28	1.91
10211738--10211897	50	3.2	50	63	7	124	36	13	20	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10212821--10212871	22	2.3	22	96	0	93	25	11	27	35	1.91
10213481--10213539	21	2.9	21	82	9	70	1	13	6	77	1.03
10213496--10213548	23	2.4	22	84	6	72	0	15	5	79	0.91
10216870--10216929	24	2.6	24	79	12	63	65	1	5	28	1.23
10216901--10216938	16	2.4	16	82	4	51	63	0	5	31	1.17
10217102--10217187	11	7.3	11	72	21	50	59	2	3	34	1.27
10217631--10217730	35	2.8	36	86	6	130	31	16	15	38	1.89
10219157--10219194	20	1.9	19	85	15	51	23	10	5	60	1.50
10224820--10224858	20	1.9	21	94	5	71	41	12	17	28	1.87
10235542--10236044	53	9.5	53	86	2	634	39	19	15	26	1.91
10240422--10240466	22	2.0	22	83	12	56	35	22	15	26	1.94
10242546--10242999	53	8.6	53	88	2	662	38	17	16	27	1.91
10242703--10242782	26	3.0	26	66	27	69	36	17	21	25	1.95
10245334--10245383	19	2.6	19	100	0	100	42	0	10	48	1.37
10246884--10246944	2	30.5	2	100	0	122	49	0	0	50	1.00
10246954--10247056	39	2.7	39	79	13	115	34	20	0	44	1.52
10247213--10247259	2	24.0	2	91	4	78	53	0	0	46	1.00
10249282--10249313	2	16.0	2	100	0	64	50	0	0	50	1.00
10249525--10249660	67	2.0	66	92	1	227	44	5	11	37	1.65
10250061--10250119	26	2.3	25	83	13	68	55	0	3	40	1.16
10255353--10255402	25	2.0	25	84	7	66	58	6	0	36	1.23
10257381--10257441	31	2.0	31	96	0	113	24	24	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10261976--10262002	2	13.5	2	100	0	54	51	0	0	48	1.00
10264655--10264684	15	2.0	15	100	0	60	13	40	13	33	1.83
10264713--10264755	21	2.0	21	86	4	59	34	9	18	37	1.83
10264838--10264981	35	4.1	36	80	2	166	38	20	23	18	1.93
10264838--10264974	71	1.9	71	91	2	222	37	20	24	17	1.93
10266401--10266520	63	1.9	63	96	0	222	35	8	13	42	1.74
10267775--10267836	24	2.6	24	94	0	106	16	24	9	50	1.75
10271144--10271184	9	4.7	9	84	6	57	43	0	0	56	0.99
10278762--10278824	21	2.9	21	85	4	81	20	36	25	17	1.94
10282319--10282365	23	2.0	23	91	0	76	57	2	0	40	1.11

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