genome.fa.s8425.2.7.7.80.10.50.1000.6.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  6  of  12  ( 1340 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)
1120079--1120287	75	2.8	76	88	6	290	57	12	1	27	1.44
1128261--1128324	29	2.2	30	85	2	85	37	18	4	39	1.72
1131621--1131674	16	3.5	16	70	10	58	53	11	14	20	1.71
1131608--1131730	30	4.1	30	86	8	162	47	13	17	21	1.82
1132642--1132686	24	1.9	23	86	13	65	4	26	4	64	1.32
1133927--1134185	114	2.2	115	83	6	335	25	23	13	36	1.92
1133897--1134225	117	2.9	117	79	8	374	25	23	14	36	1.93
1136721--1136794	10	7.1	10	69	14	51	1	24	2	71	1.07
1140290--1140353	30	2.1	30	82	5	76	48	12	15	23	1.79
1141177--1141791	332	1.9	331	87	3	909	25	16	16	40	1.90
1142437--1142558	42	2.9	42	98	0	235	37	14	18	29	1.90
1144847--1144983	60	2.3	60	77	9	136	34	14	16	35	1.89
1150226--1150294	33	2.1	33	100	0	138	37	21	13	27	1.90
1154247--1154304	30	1.9	30	92	0	98	24	20	22	32	1.98
1154290--1154369	22	3.5	23	83	10	94	28	13	27	30	1.94
1159812--1160160	63	5.6	63	92	1	542	30	18	20	30	1.96
1159816--1160161	31	11.0	31	72	8	272	30	18	19	31	1.96
1160806--1160845	21	1.9	21	94	0	71	27	22	25	25	2.00
1163363--1163400	13	3.0	13	96	3	69	52	0	7	39	1.31
1164194--1164474	31	9.0	31	75	10	241	29	18	20	31	1.96
1164189--1164474	63	4.6	63	89	1	432	30	18	20	31	1.96
1164192--1164474	94	3.0	94	75	9	234	29	18	20	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165121--1165160	21	1.9	21	100	0	80	30	22	22	25	1.99
1165188--1165241	21	2.5	23	77	20	62	24	18	7	50	1.72
1165607--1165646	20	2.0	20	85	4	55	30	30	22	17	1.97
1166921--1166978	30	1.9	30	92	0	98	24	20	22	32	1.98
1171557--1171676	59	2.0	59	96	0	222	35	15	5	44	1.68
1175496--1175550	22	2.4	23	90	3	85	38	16	25	20	1.92
1176066--1176104	21	1.9	20	89	5	60	25	25	5	43	1.75
1177476--1177560	39	2.2	39	97	0	161	45	24	2	27	1.65
1177485--1177547	20	3.2	20	62	20	51	49	20	1	28	1.58
1183199--1183266	24	2.8	24	70	18	68	27	25	23	23	2.00
1183201--1183296	48	2.0	48	82	10	115	31	22	20	25	1.98
1183514--1183572	30	2.0	30	93	0	100	32	23	5	38	1.77
1183594--1183666	29	2.5	30	97	2	139	39	10	10	38	1.76
1183598--1183666	30	2.4	28	97	2	95	40	10	11	37	1.75
1185222--1185268	13	3.4	14	82	11	53	38	4	27	29	1.76
1185364--1185408	18	2.5	18	92	0	72	24	20	31	24	1.98
1186096--1186133	19	2.0	19	100	0	76	36	5	10	47	1.61
1187577--1187627	23	2.2	23	85	0	66	31	11	3	52	1.56
1190676--1190717	21	2.0	21	85	0	57	35	0	4	59	1.19
1195063--1195123	24	2.4	25	81	8	70	47	0	3	49	1.18
1197067--1197138	32	2.2	32	92	0	117	13	22	9	54	1.68
1197127--1197164	20	1.9	20	94	0	67	7	26	15	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199071--1199098	11	2.5	11	100	0	56	14	7	28	50	1.69
1202077--1202102	13	2.0	13	100	0	52	30	30	23	15	1.95
1213200--1213286	3	29.0	3	100	0	174	66	0	0	33	0.92
1214424--1214448	6	4.2	6	100	0	50	32	0	0	68	0.90
1215379--1215422	15	3.2	15	69	24	51	52	9	13	25	1.70
1215587--1215627	21	2.0	21	90	0	64	41	19	0	39	1.52
1216643--1216682	20	2.0	21	85	9	57	57	0	2	40	1.12
1223149--1223189	20	2.0	20	85	4	55	31	4	4	58	1.40
1226935--1226969	9	3.9	9	88	0	52	82	0	2	14	0.77
1228436--1228514	31	2.6	31	88	6	108	37	15	15	31	1.88
1231229--1231269	22	1.9	22	95	5	75	21	14	12	51	1.75
1231407--1231440	17	1.9	18	88	5	52	26	17	20	35	1.95
1232820--1232885	34	1.9	34	90	0	105	57	3	0	39	1.14
1233084--1233116	14	2.4	14	90	5	50	84	6	0	9	0.76
1233346--1233399	24	2.2	24	80	6	65	61	0	1	37	1.07
1244475--1245218	372	2.0	372	97	0	1398	29	31	10	28	1.90
1251435--1251525	39	2.3	39	84	3	112	28	13	28	29	1.94
1254399--1254469	35	2.0	35	100	0	142	30	8	2	57	1.43
1256568--1256612	2	22.5	2	100	0	90	51	0	0	48	1.00
1261558--1261598	2	20.5	2	100	0	82	51	0	48	0	1.00
1270875--1271072	39	5.3	39	74	14	155	29	36	11	22	1.89
1270890--1271148	36	7.1	36	71	15	181	28	37	11	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270991--1271087	41	2.3	42	87	5	135	23	43	10	22	1.84
1270890--1271142	110	2.3	108	81	5	283	28	37	11	22	1.89
1271032--1271185	72	2.1	72	83	2	193	27	40	11	20	1.87
1272808--1272842	4	8.8	4	100	0	70	22	0	0	77	0.78
1277462--1277535	30	2.5	30	97	2	141	56	9	0	33	1.31
1277908--1277973	27	2.4	27	100	0	132	39	15	15	30	1.88
1278026--1278066	16	2.6	16	88	3	57	29	21	12	36	1.90
1278410--1278472	26	2.4	26	100	0	126	20	11	25	42	1.85
1279036--1279342	36	8.3	39	73	15	249	28	38	11	21	1.88
1279074--1279167	39	2.7	33	79	17	125	27	39	7	25	1.82
1279147--1279379	72	3.2	71	84	5	279	28	39	11	21	1.87
1288829--1289332	111	4.5	111	82	4	550	32	24	13	28	1.94
1288829--1289332	224	2.3	222	82	5	588	32	24	13	28	1.94
1289978--1290004	4	6.8	4	100	0	54	77	0	0	22	0.76
1297745--1297797	19	2.8	19	88	0	70	33	33	9	22	1.86
1297848--1297872	9	2.8	9	100	0	50	12	0	0	88	0.53
1298140--1298237	39	2.5	39	86	0	124	30	39	9	20	1.84
1298178--1298267	36	2.6	33	75	10	108	28	40	6	24	1.80
1298194--1298300	36	3.1	35	77	15	125	28	38	10	22	1.87
1298178--1298284	30	3.3	30	77	18	106	30	37	9	22	1.86
1298178--1298513	66	4.9	66	82	7	230	27	41	10	20	1.85
1298314--1298501	36	5.2	36	69	14	129	27	40	11	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298321--1298540	72	3.0	74	87	5	272	27	43	10	18	1.83
1298416--1298555	36	3.9	36	74	7	131	30	45	10	15	1.78
1298248--1298528	72	4.1	66	76	15	244	26	42	11	19	1.85
1300206--1300251	23	2.0	23	82	4	56	34	15	0	50	1.44
1302385--1302413	15	1.9	15	100	0	58	13	17	0	68	1.20
1305111--1305297	32	5.9	32	73	6	137	36	17	18	28	1.93
1305188--1305308	64	1.9	63	85	5	165	38	16	19	24	1.92
1309741--1309792	21	2.5	21	81	3	61	38	19	25	17	1.93
1309781--1309894	20	5.7	20	84	6	140	33	24	18	23	1.97
1310466--1310630	19	9.1	19	73	15	125	12	23	20	44	1.85
1310466--1310630	33	4.6	38	80	9	125	12	23	20	44	1.85
1310520--1310605	33	2.6	33	94	1	145	12	26	22	38	1.90
1310573--1310630	20	2.9	20	80	10	64	15	24	17	43	1.87
1312773--1312839	21	3.2	21	66	6	55	23	35	20	19	1.95
1312721--1312839	42	2.8	42	81	5	107	22	36	18	22	1.95
1314198--1314233	14	2.6	14	95	0	63	30	0	25	44	1.54
1314340--1314403	33	1.9	33	93	0	110	46	20	21	10	1.81
1314340--1314406	19	3.8	19	69	18	63	47	19	20	11	1.81
1314411--1314561	19	8.7	19	64	21	80	15	22	20	41	1.89
1314415--1314541	33	3.9	32	87	8	193	14	22	19	42	1.88
1314408--1314540	66	2.0	66	97	0	248	16	22	19	41	1.90
1317828--1317876	20	2.5	20	93	0	80	34	18	26	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318089--1318138	19	2.5	20	93	3	84	32	26	24	18	1.97
1318164--1318228	19	3.7	19	78	13	68	16	20	15	47	1.82
1318234--1318272	20	2.0	20	94	0	69	12	10	30	46	1.75
1318355--1318392	14	2.7	15	84	12	53	47	18	0	34	1.49
1320260--1320313	20	2.7	20	88	0	81	37	24	24	14	1.93
1320300--1320381	19	4.6	19	72	17	68	45	23	18	13	1.84
1320393--1320450	14	3.9	14	79	16	71	10	17	24	48	1.78
1320376--1320466	32	2.8	33	94	3	166	12	18	21	47	1.81
1320451--1320505	20	2.8	19	81	8	65	18	23	21	36	1.95
1320987--1321031	18	2.5	18	88	0	72	13	15	44	26	1.83

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