genome.fa.s9639.2.7.7.80.10.50.1000.5.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  5  of  62  ( 7398 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)
977219--977374	64	2.5	64	81	9	185	34	19	18	26	1.95
977845--977878	15	2.3	15	94	0	59	14	20	32	32	1.93
986056--986089	15	2.3	15	89	0	50	5	11	0	82	0.83
989525--989678	64	2.5	64	79	9	165	33	19	19	27	1.96
990149--990182	15	2.3	15	94	0	59	14	20	32	32	1.93
996310--996650	167	2.0	167	99	0	673	31	19	21	26	1.97
997954--998011	20	2.9	20	92	0	98	39	5	27	27	1.78
1000808--1000857	26	1.9	26	83	0	64	54	4	2	40	1.31
1010007--1010107	34	3.0	32	75	16	80	42	3	9	43	1.56
1010564--1010592	14	2.1	14	100	0	58	20	20	0	58	1.39
1018184--1018237	23	2.3	23	96	0	99	27	14	27	29	1.95
1030216--1030254	19	2.1	19	85	0	51	66	0	2	30	1.05
1033075--1033114	2	20.5	2	94	5	73	47	0	0	52	1.00
1035432--1035463	14	2.2	15	94	5	57	56	0	0	43	0.99
1043938--1043962	2	12.5	2	100	0	50	48	0	0	52	1.00
1048398--1048449	15	3.3	16	81	10	63	17	28	32	21	1.96
1063582--1063631	14	3.6	14	76	17	50	72	0	2	26	0.96
1064936--1065155	36	6.0	36	76	12	209	44	7	1	46	1.41
1064957--1065195	114	2.1	113	82	11	294	45	6	1	46	1.38
1064957--1065166	76	2.8	77	84	11	267	44	6	1	46	1.40
1065126--1065249	27	4.5	27	81	9	110	49	4	0	46	1.20
1065174--1065241	2	35.0	2	94	5	122	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064957--1065231	36	7.4	35	73	21	133	46	5	1	46	1.34
1072439--1072523	29	2.9	28	72	8	80	40	3	8	48	1.50
1076006--1076039	17	1.9	18	94	5	61	79	8	11	0	0.94
1076132--1076157	2	13.0	2	100	0	52	50	0	0	50	1.00
1076769--1076916	80	1.9	78	91	6	246	43	18	10	27	1.82
1089612--1089660	25	2.0	25	87	0	71	44	6	2	46	1.39
1091656--1091702	25	1.9	24	86	4	67	38	6	8	46	1.60
1106058--1106600	298	1.8	301	84	4	758	29	18	16	36	1.92
1108220--1108321	53	1.9	52	92	5	170	28	20	3	47	1.68
1113343--1113458	31	3.7	31	87	3	153	25	17	21	35	1.95
1116180--1116244	31	2.1	31	100	0	130	46	6	4	43	1.49
1124203--1124235	13	2.5	13	100	0	66	33	9	27	30	1.88
1126993--1127040	13	3.7	13	81	10	53	35	16	16	31	1.92
1127146--1127180	17	2.1	17	94	0	61	20	5	25	48	1.71
1134042--1135144	106	10.5	106	92	1	1754	32	25	18	23	1.97
1140347--1140532	86	2.2	82	86	4	255	54	10	2	32	1.48
1140347--1140508	86	1.9	87	90	1	263	55	11	2	30	1.48
1144064--1144101	20	1.9	20	88	0	58	23	34	31	10	1.89
1144949--1145045	32	3.1	32	78	14	128	28	17	18	35	1.94
1144948--1145048	31	3.2	31	81	10	125	28	18	18	33	1.95
1145036--1145129	30	3.1	30	90	3	136	20	21	27	30	1.98
1152973--1153007	6	5.8	6	86	0	52	28	2	48	20	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153116--1153197	24	3.5	24	68	15	71	21	6	45	26	1.75
1153023--1153416	140	2.8	142	83	2	479	22	5	46	25	1.72
1153023--1153421	95	4.2	95	85	4	448	23	5	46	25	1.73
1153023--1153416	48	8.3	48	82	5	397	22	5	46	25	1.72
1153451--1153960	48	10.7	48	75	1	432	24	6	45	23	1.77
1153337--1153578	119	2.0	119	87	1	342	23	5	46	24	1.74
1153117--1154178	358	2.8	357	81	8	921	23	6	45	23	1.76
1153836--1154076	117	2.1	116	93	0	410	23	7	46	23	1.76
1153451--1153960	144	3.6	144	96	0	925	24	6	45	23	1.77
1153983--1154940	48	20.0	48	76	1	740	24	6	45	23	1.76
1153859--1154079	116	1.9	116	93	0	318	24	6	46	22	1.76
1153953--1154807	144	5.9	144	93	0	1433	23	6	45	23	1.76
1154576--1154649	24	3.1	24	65	7	60	18	6	52	21	1.68
1154720--1154843	24	5.2	24	60	7	63	19	6	52	21	1.68
1154737--1154823	27	3.4	27	66	18	78	19	6	49	24	1.72
1161738--1161786	19	2.7	17	84	9	53	26	18	30	24	1.98
1161737--1161946	64	3.3	64	80	4	210	28	16	25	30	1.96
1161865--1161914	19	2.7	18	82	11	66	26	16	36	22	1.94
1164456--1164533	24	3.4	23	74	15	81	26	21	26	24	1.99
1164434--1164555	44	2.8	42	71	15	104	25	20	27	27	1.99
1170261--1170307	17	2.7	17	87	9	60	25	19	29	25	1.98
1170324--1170467	64	2.2	65	83	3	175	27	15	23	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170385--1170423	19	2.1	19	95	0	69	25	15	38	20	1.92
1184466--1184539	37	2.0	36	87	7	105	48	4	0	47	1.20
1186661--1186698	11	3.2	12	89	10	53	44	0	0	55	0.99
1188753--1188783	10	3.1	10	95	0	53	32	41	9	16	1.80
1188923--1188956	15	2.3	15	94	0	59	50	0	5	44	1.26
1194420--1194452	17	2.0	17	88	5	50	42	12	0	45	1.41
1200339--1200388	16	3.2	15	83	8	64	68	0	14	18	1.22
1200339--1200381	23	1.9	22	85	4	59	69	0	11	18	1.17
1203190--1203263	29	2.5	30	88	4	114	27	1	41	29	1.64
1203548--1203629	30	2.7	30	100	0	164	58	17	7	17	1.60
1203548--1203683	60	2.3	59	80	10	134	58	15	6	19	1.59
1222254--1222288	17	2.1	16	94	5	61	57	14	0	28	1.38
1223663--1223699	19	1.9	19	94	0	65	62	5	0	32	1.18
1224495--1224594	50	2.0	51	80	9	116	19	29	32	20	1.96
1235701--1235760	29	2.0	30	93	6	104	38	16	10	35	1.82
1241364--1241399	15	2.5	15	95	4	65	75	0	25	0	0.81
1268696--1268740	22	2.0	22	86	4	63	28	31	26	13	1.94
1269864--1269916	24	2.2	24	83	9	65	30	3	24	41	1.72
1270047--1270267	107	2.1	106	90	3	345	29	11	21	37	1.88
1270267--1270334	23	3.0	23	91	0	100	20	27	26	25	1.99
1272038--1272067	14	2.1	15	93	6	53	83	10	6	0	0.81
1273436--1273611	64	2.8	64	99	0	343	34	21	13	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273809--1273953	43	3.4	43	83	5	177	31	27	16	24	1.96
1274191--1274285	43	2.2	43	88	3	138	29	31	16	22	1.96
1274463--1274621	66	2.4	66	86	2	212	32	22	18	27	1.97
1274625--1275418	84	9.5	84	80	1	813	32	22	18	27	1.97
1274626--1275446	252	3.3	250	85	1	980	32	22	18	27	1.97
1277124--1277185	27	2.2	27	86	11	81	24	6	1	67	1.23
1279246--1279276	6	5.2	6	100	0	62	32	32	19	16	1.94
1285017--1285165	65	2.3	63	87	7	221	30	0	16	53	1.48
1285017--1285190	32	5.5	32	80	4	185	29	0	17	52	1.49
1285147--1285217	31	2.3	31	85	7	90	22	1	23	52	1.55
1289119--1289155	2	19.0	2	88	5	58	48	0	0	51	1.00
1292070--1292118	14	3.4	15	78	13	50	42	0	8	48	1.32
1294125--1294187	2	32.0	2	74	15	51	44	1	1	52	1.20
1300496--1300549	18	3.0	18	83	0	63	22	22	29	25	1.99
1306900--1306952	19	2.8	19	94	0	88	30	15	28	26	1.96
1307004--1307060	24	2.4	24	100	0	114	28	17	28	26	1.98
1307835--1307942	18	6.0	18	93	0	189	17	26	31	24	1.97
1316108--1316144	20	2.0	20	89	10	60	43	10	27	18	1.83
1316294--1316324	15	2.1	15	93	0	53	54	0	0	45	0.99
1316518--1316582	31	2.1	31	82	5	78	27	20	20	32	1.97
1318715--1318747	15	2.1	16	88	5	50	69	0	3	27	1.03
1320501--1321466	105	9.2	105	93	1	1632	22	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320531--1321477	523	1.8	524	95	0	1743	23	18	24	33	1.97
1322216--1322261	21	2.2	20	88	11	67	0	15	2	82	0.76
1322305--1322338	11	3.1	11	91	8	52	0	0	8	91	0.43
1322216--1322372	78	2.0	83	86	6	225	8	19	11	60	1.56
1332938--1332974	2	18.5	2	100	0	74	51	0	0	48	1.00
1339160--1339202	21	2.0	21	83	16	54	11	34	0	53	1.37
1341716--1341755	17	2.4	17	87	4	55	30	0	0	70	0.88
1341730--1341773	22	2.1	21	83	8	54	34	2	0	63	1.07
1341719--1341761	17	2.4	19	76	15	54	37	0	0	62	0.95
1353594--1353681	30	3.1	28	80	9	88	60	9	14	15	1.58

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   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62