genome.fa.s8053.2.7.7.80.10.50.1000.7.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  7  of  32  ( 3749 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)
1251683--1251865	75	2.4	76	85	2	244	22	24	30	23	1.99
1251661--1251865	75	2.7	76	81	6	238	21	24	31	22	1.98
1256416--1256561	73	2.0	73	100	0	292	21	17	21	38	1.93
1258404--1258443	21	1.9	21	85	10	55	35	10	2	52	1.48
1260364--1260573	75	2.8	76	81	7	239	21	24	30	23	1.99
1268950--1269276	162	2.0	164	98	1	640	31	7	37	23	1.82
1271074--1271103	14	2.1	14	93	0	51	33	30	0	36	1.58
1271168--1271251	7	12.0	7	69	5	53	45	33	1	20	1.59
1271168--1271219	21	2.5	21	81	6	70	46	32	0	21	1.52
1273134--1273176	11	3.9	11	93	0	68	30	18	23	27	1.98
1279614--1279771	86	1.8	86	100	0	316	25	32	16	24	1.96
1280607--1280651	17	2.8	16	80	9	56	68	0	4	26	1.08
1280606--1280642	14	2.8	14	84	12	51	70	0	2	27	1.01
1280721--1280816	33	3.0	31	82	14	124	50	7	3	39	1.46
1280781--1280872	38	2.4	38	92	1	159	46	6	5	41	1.52
1280878--1280964	37	2.3	40	76	15	94	40	6	8	44	1.61
1281179--1281240	29	2.1	29	84	0	79	27	14	32	25	1.95
1281504--1281590	34	2.6	34	90	3	131	31	10	17	41	1.83
1281576--1281757	37	5.1	37	76	18	163	35	14	21	28	1.93
1281542--1281694	67	2.2	67	83	6	182	34	13	21	30	1.92
1281643--1281757	36	3.1	36	90	7	171	36	15	20	27	1.93
1281860--1282343	124	3.9	122	69	11	350	25	17	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281922--1282655	254	2.9	253	89	0	1092	25	17	23	33	1.96
1282689--1282770	43	1.9	43	94	0	146	19	17	34	29	1.94
1287787--1287833	17	2.9	17	90	9	73	74	0	0	25	0.82
1287964--1288023	29	2.1	29	84	6	77	56	3	1	38	1.26
1287993--1288098	38	2.8	38	95	0	185	49	6	2	41	1.44
1288059--1288156	51	1.9	50	85	6	135	38	5	8	47	1.55
1288233--1288261	12	2.4	12	100	0	58	62	0	13	24	1.32
1299274--1299329	27	2.1	27	93	0	94	28	23	33	14	1.94
1301528--1301569	16	2.5	17	80	3	50	66	7	0	26	1.17
1302116--1302155	20	2.0	20	90	0	62	22	22	10	45	1.82
1302391--1302430	20	2.0	20	90	0	62	22	22	10	45	1.82
1304153--1304216	34	1.9	32	84	6	83	53	17	15	14	1.74
1304328--1304375	12	4.0	12	80	0	51	27	22	10	39	1.87
1304459--1304483	13	1.9	13	100	0	50	36	8	16	40	1.77
1305229--1305281	15	3.4	15	73	5	52	45	11	7	35	1.69
1305323--1305425	33	3.2	33	91	2	156	46	15	6	31	1.72
1305422--1305461	21	1.9	21	89	0	62	52	5	10	32	1.56
1311794--1311868	23	3.3	23	100	0	150	40	18	16	25	1.91
1317106--1317175	34	2.1	32	84	5	86	27	25	15	31	1.96
1317714--1317774	31	2.0	31	93	3	106	42	16	6	34	1.74
1321487--1321534	23	2.1	23	84	0	60	35	10	18	35	1.85
1321936--1322028	21	4.6	20	79	4	105	39	18	23	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321933--1322028	41	2.3	41	96	0	174	40	17	22	18	1.91
1321955--1322089	41	3.3	41	81	6	123	38	20	20	20	1.94
1322017--1322111	20	4.7	20	80	2	91	34	24	17	23	1.96
1322299--1322342	22	2.0	22	90	0	70	20	43	15	20	1.88
1322606--1322643	20	1.9	20	88	0	58	13	15	21	50	1.78
1323962--1324006	18	2.5	18	85	0	63	26	42	15	15	1.87
1324478--1324544	20	3.4	20	81	2	73	38	23	22	14	1.92
1324533--1324590	14	3.9	14	79	16	71	48	25	17	8	1.75
1324517--1324607	32	2.8	33	94	3	166	47	23	18	10	1.80
1324478--1324612	19	7.6	19	71	19	85	42	23	20	12	1.86
1324619--1324699	14	5.1	15	75	21	76	8	18	23	49	1.75
1324619--1324699	32	2.5	32	97	0	153	8	18	23	49	1.75
1324619--1324756	19	7.9	18	78	15	139	11	21	23	44	1.84
1324681--1324754	39	1.9	38	88	2	112	14	24	22	37	1.92
1326623--1326658	14	2.6	14	90	0	54	30	0	22	47	1.52
1326744--1326813	19	4.0	18	75	17	58	40	20	22	17	1.92
1326775--1326842	19	3.8	19	85	14	101	47	17	22	13	1.82
1326861--1326917	20	2.8	20	94	0	96	21	22	17	38	1.93
1327285--1327320	14	2.6	14	90	0	54	30	0	22	47	1.52
1327875--1327910	14	2.6	14	90	0	54	30	0	22	47	1.52
1326881--1328285	590	2.4	590	99	0	2785	32	12	18	36	1.89
1329155--1329213	24	2.5	24	82	0	73	28	16	18	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331713--1331800	14	5.6	14	67	23	50	43	19	26	11	1.84
1331695--1331821	33	3.8	33	98	0	245	43	18	25	12	1.85
1331821--1331863	20	2.2	20	87	4	61	16	18	23	41	1.89
1331849--1331882	14	2.4	14	85	0	50	8	23	20	47	1.78
1332004--1332040	14	2.6	14	91	0	65	45	24	0	29	1.53
1333434--1333517	42	2.0	42	85	0	114	23	16	38	21	1.93
1335541--1335639	33	3.0	33	89	1	144	39	21	26	13	1.90
1335639--1335704	19	3.4	19	81	8	71	10	16	24	48	1.78
1336227--1336278	20	2.6	20	90	0	77	26	17	28	26	1.97
1336246--1336381	41	3.3	42	78	5	118	20	20	20	38	1.94
1336264--1336343	21	3.9	21	75	6	65	18	18	20	42	1.89
1336240--1336320	20	4.0	20	75	3	72	23	17	23	35	1.95
1336309--1336401	21	4.6	20	79	4	105	18	23	18	39	1.92
1336309--1336404	41	2.3	41	96	0	174	18	22	17	40	1.91
1336853--1336915	23	2.7	23	92	0	99	38	20	4	36	1.74
1337275--1337347	23	3.2	23	80	0	83	38	20	5	35	1.76
1336611--1337548	430	2.2	432	95	2	1709	39	12	7	40	1.71
1337748--1337833	39	2.2	39	93	0	145	18	13	18	48	1.80
1338087--1338121	18	1.9	18	88	0	52	51	11	5	31	1.61
1338084--1338140	24	2.4	25	79	8	73	49	14	5	31	1.65
1338535--1338595	22	2.5	25	75	22	67	40	16	4	37	1.70
1338545--1338595	22	2.3	23	93	3	86	39	17	5	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341078--1341924	183	4.6	183	97	0	1570	34	16	14	35	1.89
1343390--1343428	3	13.0	3	83	0	51	25	33	2	38	1.70
1343394--1343476	12	6.9	12	80	0	85	21	33	8	36	1.84
1343394--1343445	15	3.7	15	77	15	56	21	34	7	36	1.82
1343398--1343476	36	2.2	36	88	0	113	21	34	8	35	1.85
1343394--1343479	6	14.3	6	75	0	55	20	33	8	37	1.83
1344937--1345820	197	4.5	199	97	1	1613	33	16	14	35	1.89
1344937--1345820	397	2.2	393	96	2	1603	33	16	14	35	1.89
1345945--1345993	19	2.6	19	93	0	80	57	10	2	30	1.43
1347782--1347847	33	2.0	33	90	0	105	22	48	0	28	1.51
1347880--1347944	21	3.1	21	80	6	69	15	29	15	40	1.88
1350178--1350223	20	2.3	19	82	10	65	19	17	10	52	1.74
1350345--1350390	20	2.3	20	89	10	76	17	17	10	54	1.70
1350447--1350905	230	2.0	227	93	1	792	39	7	7	45	1.60
1356001--1356107	3	35.7	3	94	0	187	33	2	0	63	1.09
1358192--1358235	17	2.6	17	85	3	54	31	6	0	61	1.22
1358239--1358276	15	2.8	13	88	11	51	23	5	2	68	1.23
1368865--1368909	12	3.8	12	88	8	65	88	0	11	0	0.50
1368869--1368910	10	4.0	10	84	9	57	88	0	11	0	0.53
1368864--1368909	25	1.9	23	91	8	74	86	0	13	0	0.56
1368868--1368907	17	2.4	16	88	12	62	90	0	10	0	0.47
1368865--1368910	21	2.1	21	88	11	67	86	0	13	0	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370089--1370208	59	2.0	59	96	0	222	35	13	19	31	1.90
1370148--1370374	83	2.7	83	97	0	427	30	14	21	34	1.92
1371232--1371403	73	2.4	73	95	2	301	34	13	18	32	1.90
1371164--1371516	186	1.9	188	88	5	545	35	15	19	30	1.92
1371305--1371796	113	4.3	116	88	3	703	38	13	19	29	1.90
1371305--1371796	230	2.1	229	89	1	745	38	13	19	29	1.90
1372113--1372189	3	25.7	3	91	0	118	33	5	0	61	1.19
1376697--1376728	2	16.0	2	100	0	64	50	0	0	50	1.00
1380787--1380835	6	8.2	6	84	6	55	44	0	0	55	0.99
1380789--1380906	26	4.6	24	71	21	73	43	1	1	53	1.21

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