genome.fa.s1111.2.7.7.80.10.50.1000.5.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 1987 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)
1068036--1068197	83	2.0	83	83	0	207	33	16	16	33	1.91
1070734--1070768	17	2.1	18	89	10	56	42	0	2	54	1.15
1070741--1070798	29	1.9	31	86	6	84	48	0	3	48	1.18
1092948--1093023	23	3.0	26	81	11	88	44	0	1	53	1.08
1092972--1093025	13	4.3	12	78	15	56	44	0	1	53	1.11
1092923--1093027	12	8.7	12	72	16	83	39	0	1	59	1.09
1093028--1093097	19	3.6	20	76	20	60	35	2	0	61	1.11
1093028--1093086	21	3.1	18	77	17	57	37	3	0	59	1.14
1094766--1094801	2	18.0	2	88	0	54	47	2	2	47	1.31
1094719--1094847	64	2.0	64	93	0	222	49	2	7	40	1.44
1094730--1094821	16	5.8	16	74	11	55	52	2	7	38	1.42
1095333--1095363	5	6.2	5	100	0	62	19	0	0	80	0.71
1103234--1103260	14	1.9	14	100	0	54	44	29	0	25	1.54
1103620--1103816	101	2.0	101	85	0	268	41	13	9	36	1.76
1110992--1111061	18	4.0	18	74	9	65	38	8	14	38	1.77
1112238--1112278	21	2.0	21	85	9	57	29	4	9	56	1.53
1112516--1113259	368	2.0	372	98	1	1442	34	12	23	29	1.92
1116946--1116986	18	2.3	19	79	12	50	26	2	0	70	0.99
1122162--1122204	21	2.0	21	100	0	86	20	13	13	51	1.76
1122557--1122601	23	1.9	23	86	4	63	71	4	0	24	1.05
1122570--1122629	21	3.0	21	80	4	70	68	5	1	25	1.19
1122557--1122617	21	2.7	24	77	12	65	70	4	1	22	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122564--1122617	22	2.4	21	81	9	63	72	3	1	22	1.10
1122592--1122626	19	1.9	17	88	11	52	68	5	2	22	1.24
1123895--1123932	20	1.9	20	88	0	58	50	10	15	23	1.75
1129295--1129345	22	2.3	22	86	0	66	19	1	21	56	1.51
1129304--1129346	22	2.0	22	95	0	77	18	2	18	60	1.47
1129304--1129353	22	2.2	22	89	3	73	20	2	22	56	1.53
1131362--1131444	19	4.4	19	77	6	78	44	8	15	31	1.76
1131429--1131475	19	2.5	19	82	6	60	46	0	17	36	1.48
1137348--1137461	19	6.0	19	81	6	115	45	6	18	29	1.73
1137348--1137461	38	3.0	38	83	7	133	45	6	18	29	1.73
1137348--1137457	57	1.9	57	81	7	134	44	6	19	30	1.75
1137496--1137541	12	3.8	12	85	0	56	50	2	19	28	1.60
1146200--1146782	156	3.7	156	82	5	662	48	5	16	29	1.69
1146200--1146782	313	1.9	312	81	7	707	48	5	16	29	1.69
1152392--1152555	84	2.0	84	91	0	265	28	15	25	31	1.95
1153071--1153261	38	5.0	37	68	12	136	38	14	20	26	1.91
1152873--1153261	76	5.1	76	74	2	271	38	13	20	26	1.91
1152949--1153261	152	2.1	152	86	1	439	39	14	20	25	1.91
1154117--1154149	15	2.1	16	88	5	50	39	39	3	18	1.66
1154413--1154441	2	15.0	2	92	7	51	48	0	0	51	1.00
1155352--1155405	9	6.2	9	75	16	51	29	0	1	68	1.00
1155355--1155409	16	3.4	16	78	11	58	29	0	1	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156936--1156983	21	2.3	21	96	0	87	27	33	25	14	1.94
1157297--1157322	3	8.7	3	100	0	52	0	0	65	34	0.93
1157528--1157588	25	2.4	25	77	0	68	22	3	6	67	1.29
1163600--1163629	15	2.0	15	93	0	51	50	10	26	13	1.73
1167277--1167361	37	2.2	38	86	12	113	54	7	36	2	1.41
1167277--1167391	38	3.0	37	77	14	117	53	8	35	2	1.46
1169480--1169809	163	2.0	163	99	0	651	33	9	12	44	1.75
1169940--1169986	24	2.0	24	83	8	60	40	14	14	29	1.87
1184527--1184557	16	2.0	16	93	6	55	48	0	6	45	1.28
1191373--1191412	19	2.1	19	85	4	53	55	2	2	40	1.27
1197566--1198121	281	2.0	281	89	2	848	42	21	5	30	1.75
1198671--1198709	20	2.0	20	84	0	51	41	30	5	23	1.76
1199474--1200034	280	2.0	281	99	0	1115	35	14	21	28	1.93
1210028--1210277	81	3.1	81	91	0	401	31	20	11	36	1.88
1217940--1218088	48	3.1	48	86	3	210	23	10	18	48	1.78
1220049--1220080	3	10.3	3	93	6	55	62	3	0	34	1.11
1229402--1229510	24	4.5	23	74	8	76	21	13	16	48	1.80
1234315--1234406	24	3.9	23	69	11	60	25	14	16	44	1.85
1246568--1246609	2	21.0	2	100	0	84	50	0	0	50	1.00
1247881--1247922	3	14.7	3	90	9	70	64	0	0	35	0.94
1247883--1247925	22	2.0	22	100	0	86	65	0	0	34	0.93
1247883--1247933	22	2.3	22	90	6	77	64	1	1	31	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247883--1247925	17	2.6	16	92	7	50	65	0	0	34	0.93
1248290--1248562	116	2.3	119	85	9	380	25	20	12	40	1.88
1248704--1248972	109	2.5	108	83	7	332	26	18	14	40	1.88
1250090--1250154	20	3.2	20	86	6	87	56	4	4	33	1.40
1261849--1261882	2	17.0	2	93	0	59	47	0	0	52	1.00
1263272--1263310	3	13.7	3	84	10	55	64	2	0	33	1.08
1263272--1263321	25	2.0	25	92	0	82	66	2	2	30	1.14
1278409--1278508	3	33.7	3	90	6	159	35	0	2	63	1.06
1282354--1282495	55	2.6	54	86	4	185	41	14	23	21	1.89
1283526--1283622	52	1.9	51	87	4	142	40	11	14	34	1.82
1287789--1287872	34	2.5	33	81	12	91	61	14	2	21	1.43
1287785--1287861	34	2.2	34	84	11	95	61	16	1	20	1.42
1287886--1287920	13	2.5	15	81	18	56	74	5	0	20	1.02
1287891--1287920	13	2.3	13	100	0	60	73	6	0	20	1.05
1287914--1287961	23	2.1	22	84	3	60	68	10	0	20	1.18
1290008--1290070	24	2.7	24	95	2	110	58	4	0	36	1.19
1290746--1290806	25	2.6	23	82	14	79	70	0	3	26	1.02
1292367--1293234	105	8.3	105	92	1	1406	23	19	25	32	1.98
1294079--1294117	6	6.8	6	91	8	64	0	0	10	89	0.48
1294079--1294117	11	3.4	12	89	10	64	0	0	10	89	0.48
1294079--1294117	17	2.3	17	100	0	78	0	0	10	89	0.48
1304189--1304225	18	2.2	18	85	9	51	75	2	5	16	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304606--1304666	25	2.6	23	82	14	79	70	0	3	26	1.02
1305778--1305834	29	2.0	29	86	6	80	63	1	1	33	1.15
1305801--1305842	21	2.0	22	86	13	61	69	2	0	28	1.01
1306104--1306161	16	3.5	16	68	9	53	31	29	18	20	1.97
1306097--1306168	34	2.1	34	100	0	144	31	30	18	19	1.95
1306489--1306529	16	2.5	16	92	4	64	46	0	0	53	1.00
1306668--1306694	14	1.9	14	100	0	54	29	0	3	66	1.09
1308018--1308061	3	14.7	3	100	0	88	34	0	0	65	0.93
1310171--1310210	13	3.0	13	81	3	53	22	15	12	50	1.77
1313167--1313228	30	2.0	31	90	3	99	38	35	4	20	1.74
1313577--1313663	29	2.9	30	73	15	81	31	19	6	42	1.77
1315190--1315216	2	13.5	2	100	0	54	51	0	0	48	1.00
1315797--1315888	25	3.7	24	82	7	121	36	17	1	44	1.56
1319634--1319703	34	2.1	32	89	5	104	21	31	15	31	1.95
1327027--1327060	13	2.4	14	90	9	52	23	32	14	29	1.94
1334000--1334152	82	1.9	82	93	2	263	32	17	16	33	1.93
1336868--1337167	53	5.7	53	91	0	458	40	19	14	27	1.89
1337163--1337274	48	2.3	48	83	3	136	47	20	7	25	1.75
1337762--1337804	22	1.9	23	85	4	61	20	27	11	39	1.88
1337839--1337889	20	2.5	20	87	0	75	29	23	13	33	1.93
1347976--1348000	12	2.1	12	100	0	50	60	40	0	0	0.97
1349863--1349902	19	2.1	19	90	0	62	10	70	15	5	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352824--1353190	53	7.0	53	92	1	571	38	18	14	27	1.90
1353213--1353360	48	3.1	47	82	5	172	47	17	9	25	1.77
1360990--1361024	18	2.0	17	88	5	52	45	11	0	42	1.40
1386149--1386186	8	5.0	8	81	12	53	34	0	0	65	0.93
1386327--1386392	32	2.1	32	88	0	96	28	19	16	34	1.94
1389475--1389499	3	8.3	3	100	0	50	32	0	0	68	0.90
1389503--1389530	2	14.0	2	100	0	56	50	0	0	50	1.00
1389569--1389621	23	2.2	24	86	3	72	39	39	11	9	1.74
1390115--1390292	36	4.7	36	81	11	146	44	6	10	38	1.64
1390189--1390692	41	13.6	38	78	17	441	45	3	8	42	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17