genome.fa.s9597.2.7.7.80.10.50.1000.6.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: VEPZ01009597.1 Hibiscus syriacus cultivar Beakdansim tig00116976_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1557931

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 803 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)
1117391--1117489	19	5.4	19	78	12	109	9	17	28	45	1.78
1117364--1117453	33	2.8	32	90	6	139	6	17	27	47	1.73
1117533--1117998	91	5.1	93	94	3	849	46	18	12	22	1.82
1117533--1117998	181	2.5	182	95	3	839	46	18	12	22	1.82
1119689--1119786	19	5.7	18	73	22	86	41	23	24	10	1.85
1119677--1119764	14	5.7	14	72	25	63	40	25	25	9	1.84
1119669--1119781	33	3.5	33	92	2	185	44	22	23	9	1.82
1119798--1119855	15	3.7	15	77	18	64	8	24	22	44	1.80
1119782--1119903	33	3.4	34	83	10	138	9	22	21	45	1.81
1119838--1119908	21	3.4	21	84	3	99	12	25	15	46	1.81
1119993--1120062	33	2.2	33	86	2	97	48	17	22	11	1.79
1120243--1120297	22	2.5	22	81	0	74	20	16	40	23	1.91
1120420--1120501	40	2.1	40	81	6	96	23	15	23	37	1.93
1120443--1120635	20	9.6	20	83	3	219	19	20	25	35	1.96
1120442--1120757	60	5.2	60	78	9	200	19	18	25	36	1.95
1120622--1120704	21	4.0	21	73	6	78	25	16	22	34	1.95
1120602--1120700	42	2.4	43	77	11	100	21	18	22	38	1.93
1132122--1132251	31	4.2	31	76	7	86	32	22	19	26	1.97
1132144--1132272	63	2.1	61	87	7	188	32	20	20	27	1.97
1132147--1132274	31	4.1	31	80	9	152	33	21	18	26	1.96
1132967--1133008	22	2.0	21	86	13	59	30	26	0	42	1.55
1133458--1133502	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136607--1136679	30	2.4	30	95	0	128	30	24	20	24	1.99
1136665--1136792	31	4.1	31	78	6	141	34	21	17	26	1.96
1137486--1137527	22	2.0	21	86	13	59	30	26	0	42	1.55
1137977--1138021	21	2.1	21	87	0	63	15	24	28	31	1.96
1146725--1146817	39	2.3	40	81	10	109	26	12	27	32	1.93
1146791--1146913	41	3.0	42	72	20	132	34	21	20	24	1.97
1146783--1146919	42	3.3	41	74	15	147	35	20	20	24	1.96
1146953--1147133	41	4.4	41	81	6	197	35	14	17	32	1.90
1148378--1148702	124	2.6	123	80	9	367	26	18	18	35	1.95
1148378--1148722	41	8.4	41	80	7	342	27	18	18	34	1.95
1150876--1151105	102	2.3	102	99	0	451	29	11	8	50	1.68
1156815--1156867	21	2.5	21	76	11	63	45	20	33	0	1.52
1156846--1156917	21	3.4	21	82	0	90	41	18	37	2	1.65
1157332--1157583	129	1.9	129	82	7	314	34	21	15	28	1.94
1157332--1157583	42	5.8	43	75	7	197	34	21	15	28	1.94
1157585--1157695	43	2.6	43	82	5	127	33	24	9	32	1.88
1158288--1158343	2	28.0	2	100	0	112	50	0	0	50	1.00
1158925--1158957	17	1.9	17	88	11	50	57	0	3	39	1.14
1168204--1168250	2	23.5	2	100	0	94	51	0	0	48	1.00
1172922--1172959	16	2.4	17	82	13	53	65	2	5	26	1.27
1173955--1174996	105	10.0	105	89	3	1531	22	17	26	33	1.96
1173955--1175027	205	5.2	206	91	3	1539	22	18	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173955--1175027	310	3.4	312	89	4	1540	22	18	26	33	1.96
1175735--1175889	65	2.4	65	86	6	208	35	11	20	32	1.88
1175848--1175917	36	1.9	36	85	5	97	41	12	20	25	1.88
1175943--1176030	34	2.5	35	90	5	133	37	14	22	25	1.92
1175768--1176018	101	2.5	98	77	9	265	35	13	21	29	1.91
1176435--1176484	24	2.1	24	100	0	100	30	16	22	32	1.95
1177205--1177275	22	3.2	22	87	0	106	29	12	22	35	1.91
1177903--1177944	22	1.9	22	85	9	59	2	19	9	69	1.28
1177925--1177977	15	3.4	17	78	14	53	0	16	9	73	1.08
1181609--1181650	17	2.5	17	84	3	59	66	2	4	26	1.23
1182855--1182934	41	1.9	42	89	2	126	40	0	6	53	1.26
1182852--1182943	41	2.3	38	82	12	121	42	0	6	51	1.28
1191703--1191732	2	15.0	2	100	0	60	50	0	0	50	1.00
1199599--1199684	27	3.2	27	63	12	68	24	11	39	24	1.88
1199653--1199742	30	3.2	30	61	23	77	23	11	41	24	1.87
1199572--1199850	54	5.2	54	91	0	432	21	10	40	27	1.86
1208176--1208419	123	2.0	123	98	0	470	25	18	21	34	1.96
1217384--1217411	10	2.8	10	100	0	56	42	0	17	39	1.50
1220680--1220730	17	2.9	18	80	5	52	72	1	11	13	1.20
1222414--1222612	99	2.0	99	94	0	344	21	19	26	32	1.97
1223700--1223745	8	6.1	7	90	9	65	0	15	4	80	0.86
1223700--1223745	15	3.1	14	85	14	65	0	15	4	80	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223702--1223745	23	1.9	23	90	9	72	0	15	4	79	0.89
1234175--1234236	23	2.7	23	78	12	56	74	0	8	17	1.06
1237248--1237279	16	2.1	15	94	5	55	9	37	12	40	1.75
1242557--1242587	16	1.9	16	100	0	62	29	32	25	12	1.93
1262326--1262384	11	5.5	11	81	4	66	66	6	0	27	1.17
1262357--1262381	10	2.5	10	100	0	50	64	8	0	28	1.22
1262326--1262388	32	1.9	33	84	9	85	65	6	0	28	1.17
1262451--1262523	26	2.6	26	75	18	67	54	2	2	39	1.29
1263555--1263597	20	2.3	18	84	11	52	25	4	2	67	1.22
1263576--1263635	21	2.9	20	80	5	66	25	1	0	73	0.93
1263576--1263637	11	5.8	11	70	14	58	25	1	0	72	0.94
1268206--1268832	209	3.0	209	98	0	1220	17	26	19	37	1.93
1272002--1272029	8	3.5	8	100	0	56	39	0	10	50	1.37
1272212--1272240	11	2.5	12	88	11	51	41	6	24	27	1.80
1273927--1274022	31	3.1	31	75	8	97	26	18	20	34	1.96
1275678--1275745	23	3.0	23	91	0	100	20	27	26	25	1.99
1282571--1282638	23	3.0	23	91	0	100	22	26	26	25	2.00
1283965--1284016	21	2.6	21	87	6	72	23	21	11	44	1.84
1285874--1285944	32	2.2	32	100	0	142	23	19	22	33	1.97
1286357--1286382	11	2.4	11	100	0	52	46	0	15	38	1.46
1287056--1287106	12	4.3	12	76	18	54	31	0	1	66	1.03
1287089--1287222	24	4.7	27	71	20	94	43	0	1	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287064--1287223	14	12.8	12	68	20	71	41	0	1	56	1.15
1287068--1287223	63	2.5	64	91	5	248	41	0	1	56	1.15
1287746--1287806	31	2.0	31	93	0	104	44	9	6	39	1.64
1292502--1292620	60	2.0	60	85	3	159	31	20	5	42	1.73
1292810--1292910	31	3.3	31	67	10	91	34	5	23	35	1.79
1292779--1292947	60	2.8	59	72	12	155	37	5	23	33	1.79
1293839--1293868	13	2.2	14	94	5	53	36	0	0	63	0.95
1295361--1295412	16	3.1	17	77	8	52	53	5	1	38	1.36
1311225--1311513	152	2.0	144	87	5	416	29	10	20	39	1.86
1315996--1316026	15	2.1	15	100	0	62	48	25	0	25	1.52
1317814--1317839	2	13.0	2	100	0	52	50	0	0	50	1.00
1319447--1319604	65	2.4	65	82	5	192	37	6	14	41	1.71
1319515--1319876	95	4.0	91	82	11	381	37	7	15	39	1.75
1319574--1319711	26	5.1	27	72	11	113	36	7	14	40	1.75
1319568--1319736	81	2.1	81	93	2	286	39	6	15	39	1.73
1319833--1319913	25	3.1	24	68	19	72	40	7	12	39	1.71
1321560--1321643	39	2.2	40	80	6	100	40	16	22	20	1.91
1326818--1326962	75	1.9	75	94	0	254	24	24	21	29	1.99
1368961--1369024	31	2.1	30	82	8	76	56	9	1	32	1.41
1370023--1370061	18	2.2	17	86	4	51	38	0	7	53	1.30
1370092--1370125	16	2.0	18	88	11	54	26	2	5	64	1.30
1370593--1370842	132	1.9	131	90	3	403	36	12	14	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371240--1371315	35	2.2	35	90	4	118	36	1	23	38	1.64
1373437--1373749	169	1.9	169	82	5	400	23	32	18	25	1.97
1374250--1374300	19	2.6	20	87	6	77	37	29	9	23	1.87
1374306--1374387	39	2.1	39	81	2	92	26	21	17	34	1.95
1374317--1374394	20	4.0	20	70	9	61	24	23	16	35	1.95
1374630--1374705	25	3.0	25	68	21	77	25	2	10	61	1.41
1374634--1374711	24	3.0	28	67	27	80	28	2	10	58	1.44
1375268--1375304	18	2.1	18	94	0	65	45	5	13	35	1.66
1376546--1376698	42	3.6	42	85	0	198	26	39	13	20	1.89
1376813--1376865	21	2.5	21	87	0	79	22	13	30	33	1.92

Tables:   1   2   3   4   5   6   7