genome.fa.s8092.2.7.7.80.10.50.1000.7.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1399 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)
1206911--1206961	19	2.7	19	85	8	70	25	15	35	23	1.94
1206805--1207012	65	3.2	64	81	11	210	27	17	25	29	1.97
1209032--1209167	68	2.0	68	100	0	272	36	25	11	26	1.90
1209582--1209624	21	2.0	21	95	0	77	18	9	46	25	1.79
1210327--1210398	2	37.0	2	94	5	130	50	0	0	50	1.00
1212973--1213027	5	10.8	5	79	14	51	18	1	3	76	1.02
1212970--1213028	22	2.6	21	75	21	57	18	1	3	76	1.02
1212973--1213016	14	3.1	14	83	6	54	18	2	2	77	0.98
1213710--1213744	15	2.4	14	86	9	52	82	2	14	0	0.77
1213788--1213867	38	2.3	34	78	19	92	35	11	20	33	1.88
1219259--1219302	2	22.0	2	95	0	79	47	0	2	50	1.13
1220427--1220470	23	1.9	23	95	0	79	36	47	0	15	1.46
1225998--1226073	35	2.2	35	88	4	109	39	21	1	38	1.62
1226473--1226720	130	1.9	130	92	0	415	36	15	12	35	1.85
1226487--1226751	130	2.0	129	81	4	300	39	13	12	33	1.83
1227050--1227112	28	2.3	27	78	8	63	46	1	3	49	1.27
1227192--1227225	16	2.0	18	88	11	54	64	5	2	26	1.30
1235887--1235997	51	2.1	52	95	3	197	39	9	3	47	1.52
1237887--1237916	12	2.5	12	100	0	60	43	13	0	43	1.43
1238127--1238180	21	2.6	21	100	0	108	20	16	33	29	1.95
1238211--1238262	21	2.5	21	81	3	61	38	19	25	17	1.93
1238293--1238345	20	2.7	20	93	0	88	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238863--1238917	19	2.8	19	83	2	74	49	23	16	10	1.77
1238863--1238928	19	3.5	19	81	4	62	48	25	15	10	1.77
1238924--1239108	19	10.1	19	77	14	174	11	22	22	43	1.85
1238924--1239108	33	5.1	38	79	12	174	11	22	22	43	1.85
1239051--1239108	20	2.9	20	80	10	64	13	24	18	43	1.87
1241108--1241230	42	2.9	42	78	2	113	22	34	17	24	1.96
1242577--1242612	14	2.6	14	95	0	63	30	0	25	44	1.54
1242791--1242889	19	5.7	19	65	22	74	14	22	21	42	1.88
1242795--1242902	33	3.3	32	82	10	137	14	23	20	41	1.89
1242788--1242921	66	2.0	67	86	1	189	17	22	20	39	1.92
1245183--1245207	12	2.1	12	100	0	50	0	28	0	72	0.86
1245377--1245420	22	2.0	22	91	4	72	34	22	18	25	1.96
1246462--1246518	20	2.9	20	89	2	80	38	21	22	17	1.93
1246537--1246602	18	3.9	18	81	18	88	13	22	18	45	1.84
1247955--1248302	176	2.0	171	97	2	651	22	25	25	26	2.00
1248741--1248807	19	3.5	19	83	4	89	37	23	23	14	1.93
1248796--1248853	14	3.9	14	79	16	71	48	25	15	10	1.77
1248780--1248869	32	2.8	32	91	3	135	46	25	16	11	1.80
1248811--1248869	18	3.4	18	73	23	56	47	27	15	10	1.77
1248887--1248944	14	3.9	14	79	16	71	10	17	24	48	1.78
1248870--1248960	32	2.8	33	93	3	157	12	17	21	48	1.80
1248945--1248999	20	2.8	19	83	8	65	16	23	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249481--1249525	18	2.5	18	88	0	72	13	15	44	26	1.83
1250833--1250870	20	1.9	20	88	0	58	50	21	15	13	1.78
1251133--1251176	22	2.0	22	90	0	70	20	15	43	20	1.88
1251402--1251502	20	4.9	21	72	12	68	19	19	17	42	1.89
1251344--1251458	20	5.7	20	76	5	88	24	17	21	36	1.94
1251386--1251520	41	3.3	41	83	4	148	20	21	20	38	1.94
1251447--1251539	20	4.6	20	78	4	96	17	24	18	39	1.91
1251447--1251539	41	2.3	41	100	0	186	17	24	18	39	1.91
1254213--1254258	21	2.2	21	84	3	58	28	4	8	58	1.47
1257607--1257642	17	2.1	18	89	5	56	38	11	13	36	1.81
1259288--1259400	57	2.0	57	92	0	190	33	18	12	35	1.88
1260470--1260509	20	2.0	20	90	0	62	32	27	12	27	1.93
1262600--1262635	17	2.1	18	89	5	56	38	11	13	36	1.81
1268773--1268864	15	6.2	15	76	2	78	34	4	21	39	1.73
1268784--1268862	29	2.7	30	80	4	79	34	5	22	37	1.76
1268979--1269070	24	3.9	23	71	7	60	21	20	22	34	1.96
1268988--1269044	24	2.4	24	82	2	80	24	21	22	31	1.98
1269034--1269094	24	2.6	24	76	2	61	21	19	22	36	1.95
1273120--1273163	17	2.5	18	81	3	54	63	4	0	31	1.14
1277059--1277372	157	2.0	157	100	0	628	41	19	13	25	1.88
1283931--1284017	15	6.1	15	76	14	94	55	2	0	42	1.12
1283948--1284035	42	2.1	42	91	4	144	48	4	1	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286699--1286742	21	2.1	21	82	0	52	52	15	13	18	1.75
1287880--1287927	15	3.0	16	81	9	62	45	4	8	41	1.53
1287854--1287939	32	2.7	32	75	7	102	55	3	4	36	1.37
1289110--1289160	22	2.3	22	100	0	102	58	3	15	21	1.53
1298443--1298506	28	2.2	28	83	8	76	17	42	1	39	1.59
1309793--1309920	31	4.1	31	74	8	118	29	17	18	34	1.94
1309879--1309945	30	2.2	31	83	2	82	20	19	23	35	1.95
1312223--1312267	21	2.1	21	87	0	63	31	28	24	15	1.96
1312616--1312649	16	2.1	16	88	0	50	32	0	17	50	1.47
1313699--1313826	31	4.1	31	78	9	143	26	17	21	34	1.96
1316801--1316845	21	2.1	21	91	0	72	33	28	22	15	1.95
1318260--1318387	31	4.1	31	80	9	143	27	18	20	33	1.96
1326300--1326366	31	2.2	31	97	0	125	29	16	16	37	1.91
1326898--1327069	2	91.0	2	77	17	172	44	0	1	52	1.15
1326871--1326910	21	2.0	20	85	5	53	40	0	5	55	1.22
1326821--1327069	72	3.4	72	76	15	203	42	0	3	53	1.24
1326919--1327064	63	2.2	63	90	7	220	43	0	2	54	1.12
1329122--1329217	18	5.3	18	76	8	106	19	28	23	28	1.99
1329122--1329227	53	2.0	53	100	0	212	18	30	22	28	1.98
1330603--1330656	25	2.2	25	78	15	60	46	16	3	33	1.65
1330913--1330996	23	3.7	23	98	0	150	27	27	26	19	1.99
1332328--1332427	49	2.0	50	98	1	193	36	25	6	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335620--1335706	45	1.9	45	97	0	165	28	18	13	39	1.89
1336227--1336310	23	3.7	23	93	0	114	28	23	25	22	1.99
1338112--1338168	4	13.0	4	79	17	60	24	3	0	71	1.01
1338112--1338168	13	4.3	12	77	18	60	24	3	0	71	1.01
1338112--1338168	18	3.2	19	83	11	68	24	3	0	71	1.01
1338116--1338168	27	1.9	28	85	11	74	24	3	0	71	1.02
1339649--1339706	30	1.9	30	82	0	71	46	3	31	18	1.66
1343317--1343410	46	2.0	46	100	0	188	47	14	6	30	1.69
1344248--1344290	13	3.0	14	83	13	52	69	2	0	27	1.00
1344346--1344378	13	2.5	13	90	0	57	66	0	0	33	0.92
1351138--1351179	22	1.9	22	90	0	66	71	2	0	26	0.98
1355319--1355415	26	3.6	25	75	17	81	64	6	1	27	1.23
1355447--1355537	46	2.0	46	93	0	155	37	19	15	27	1.92
1357340--1357364	6	4.2	6	100	0	50	0	20	32	48	1.50
1358834--1358879	19	2.4	19	85	0	65	73	4	0	21	1.00
1360189--1360219	13	2.4	13	94	0	53	32	3	45	19	1.66
1361045--1361111	28	2.4	28	97	2	127	11	8	35	43	1.73
1360840--1361436	250	2.4	240	84	12	762	23	11	28	36	1.89
1361307--1361387	38	2.2	38	86	6	112	14	11	37	37	1.82
1361970--1362015	18	2.8	16	83	6	56	28	28	6	36	1.82
1362370--1362407	20	1.9	20	88	0	58	36	10	28	23	1.88
1379605--1379659	20	2.8	20	94	0	101	23	7	21	47	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379600--1379668	20	3.4	20	87	2	93	27	11	18	42	1.85
1381935--1382049	60	1.9	60	85	0	158	35	22	5	36	1.77
1381933--1382073	60	2.3	60	80	0	156	36	21	6	36	1.79
1381938--1382089	60	2.5	60	80	2	135	36	21	6	35	1.80
1387168--1387209	22	1.9	22	90	0	66	26	14	26	33	1.94
1387648--1388237	55	10.8	55	88	2	841	34	18	19	28	1.95
1388400--1388649	81	3.1	81	88	0	365	39	10	21	28	1.87
1395333--1395378	23	2.0	23	100	0	92	52	4	17	26	1.63
1402818--1402859	20	2.2	20	86	4	59	50	2	0	47	1.14
1415866--1416033	76	2.2	76	92	0	282	30	24	19	25	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12