genome.fa.s9624.2.7.7.80.10.50.1000.6.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  6  of  38  ( 4514 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)
1048451--1048520	30	2.3	30	87	0	104	37	18	5	38	1.75
1049469--1049526	30	1.9	30	86	6	82	31	13	8	46	1.74
1057490--1057555	27	2.4	28	80	10	82	75	6	6	12	1.16
1057490--1057563	27	2.7	27	83	4	78	75	6	5	12	1.16
1057600--1057658	21	2.8	21	72	10	57	74	1	8	15	1.13
1057838--1057863	3	8.7	3	100	0	52	69	0	0	30	0.89
1057805--1057857	24	2.2	23	78	15	54	67	1	3	26	1.17
1057872--1057924	22	2.4	21	79	14	54	77	1	3	16	1.01
1058957--1058988	2	16.0	2	100	0	64	50	0	0	50	1.00
1061667--1061844	21	8.5	21	82	4	218	30	21	21	25	1.98
1061853--1061956	21	5.0	21	95	0	190	24	23	23	29	1.99
1062581--1062613	6	5.5	6	96	0	57	0	15	54	30	1.41
1062706--1062808	21	4.8	21	81	11	120	38	22	20	18	1.93
1062702--1062823	63	1.9	62	86	6	174	37	22	20	18	1.94
1069772--1069810	13	3.1	12	88	7	51	71	2	0	25	0.98
1074631--1074768	21	6.8	20	69	8	73	39	23	17	20	1.92
1074736--1074944	20	10.4	20	82	6	217	37	25	17	19	1.93
1075623--1075669	24	2.0	24	87	8	69	25	14	21	38	1.92
1075844--1075868	12	2.1	12	100	0	50	72	0	28	0	0.86
1078154--1078383	19	12.7	19	78	16	265	45	16	22	15	1.85
1078154--1078383	53	4.2	53	84	8	241	45	16	22	15	1.85
1078154--1078382	39	6.3	39	80	14	269	44	17	22	15	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078132--1078382	92	2.8	87	81	11	326	45	17	22	15	1.85
1078378--1078446	14	4.6	14	67	22	50	11	20	21	46	1.82
1078392--1078470	33	2.4	34	87	6	126	13	18	18	48	1.81
1078373--1078484	47	2.2	50	89	9	167	13	22	19	44	1.85
1078410--1078484	19	4.2	19	78	18	97	14	22	17	45	1.85
1078415--1078492	20	4.3	19	79	14	67	15	23	16	44	1.85
1078587--1078626	14	2.8	14	88	3	62	45	20	0	35	1.51
1080489--1080661	19	9.6	19	76	12	150	46	23	19	10	1.81
1080524--1080652	71	1.9	66	82	7	159	48	23	19	9	1.77
1080564--1080656	33	2.8	33	93	0	159	47	21	20	10	1.80
1080523--1080661	52	2.7	52	73	12	140	46	23	20	9	1.79
1080673--1080731	14	3.9	14	76	20	64	6	16	28	47	1.72
1080657--1080780	33	3.7	33	91	1	185	8	17	27	45	1.78
1080657--1080748	19	5.4	18	72	24	83	7	17	28	46	1.75
1080706--1080762	14	3.7	14	72	20	51	8	22	24	43	1.81
1082623--1082686	20	3.2	20	82	4	92	46	15	25	12	1.81
1082621--1082685	21	3.1	21	82	4	96	47	15	26	10	1.78
1082727--1082783	14	3.7	14	72	20	51	10	24	21	43	1.83
1082711--1082790	33	2.4	33	93	0	133	10	21	21	47	1.79
1082771--1082844	21	3.5	21	78	7	87	14	21	16	47	1.82
1082924--1082994	33	2.2	33	94	0	124	47	16	23	11	1.79
1083374--1083566	20	9.6	20	83	5	228	18	18	27	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085688--1085724	20	1.9	19	89	10	58	45	10	24	18	1.81
1086826--1086863	14	2.7	14	87	0	58	23	39	28	7	1.83
1086919--1086997	31	2.6	30	90	4	115	26	26	31	15	1.95
1095675--1095735	27	2.2	28	80	14	72	62	0	0	37	0.96
1095660--1095717	16	3.4	17	70	15	57	62	0	0	37	0.96
1095843--1095873	16	2.0	16	93	6	55	54	0	0	45	0.99
1095843--1095875	15	2.3	15	89	5	50	57	0	0	42	0.98
1097307--1097368	3	21.0	3	90	3	81	59	0	1	38	1.07
1097671--1097871	105	1.9	106	85	7	284	26	17	14	40	1.89
1097847--1098409	113	5.0	113	93	0	923	26	21	15	36	1.93
1098775--1098816	22	1.9	22	95	0	75	38	11	16	33	1.86
1105916--1105990	35	2.2	34	82	2	87	58	8	12	21	1.59
1106153--1106238	43	2.0	43	93	0	145	36	24	10	29	1.89
1108668--1108698	2	15.5	2	93	0	53	48	0	0	51	1.00
1108953--1108985	15	2.1	16	88	5	50	54	0	3	42	1.15
1109023--1109073	14	3.6	14	72	15	50	58	0	0	41	0.98
1109032--1109108	37	2.2	34	81	11	84	63	2	2	31	1.21
1109900--1109955	22	2.5	22	97	0	103	21	28	28	21	1.99
1110281--1110343	3	21.0	3	85	6	65	57	1	1	39	1.18
1110281--1110343	22	2.8	22	82	2	81	57	1	1	39	1.18
1112406--1112501	30	3.3	29	76	13	90	41	0	1	57	1.06
1112381--1112473	32	2.9	31	79	7	89	40	0	1	58	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114834--1114940	34	3.1	34	89	0	160	53	5	2	38	1.39
1114834--1114954	34	3.6	33	79	12	113	51	6	2	39	1.41
1115363--1115742	127	3.0	127	92	0	618	34	21	23	21	1.97
1120060--1120123	21	3.1	21	75	4	76	17	17	26	39	1.91
1120064--1120187	41	3.0	41	81	10	130	18	18	22	40	1.91
1120112--1120183	22	3.4	22	67	11	69	19	18	23	38	1.93
1120112--1120201	41	2.2	41	95	0	162	20	18	22	38	1.93
1120516--1120548	6	5.5	6	92	0	57	0	15	48	36	1.45
1120643--1120711	19	3.5	19	69	11	66	40	21	18	18	1.91
1120643--1120732	41	2.2	41	97	0	171	38	23	18	18	1.93
1120661--1120732	22	3.4	22	71	11	78	38	25	18	18	1.92
1120721--1120857	41	3.5	41	80	11	169	37	23	18	21	1.94
1120744--1120850	21	5.4	21	68	15	84	35	25	17	21	1.95
1120787--1120865	36	2.3	34	89	6	115	32	26	18	21	1.97
1128148--1128207	30	2.0	30	83	6	77	50	3	0	46	1.18
1132094--1132516	191	2.2	193	81	4	480	39	11	11	38	1.78
1132961--1133034	33	2.2	33	95	4	132	33	27	8	31	1.86
1133319--1133394	24	3.0	26	88	7	129	60	7	6	25	1.49
1133876--1133914	12	3.3	12	92	7	71	74	0	0	25	0.82
1136482--1136589	56	1.9	56	86	0	153	36	15	16	31	1.91
1136483--1136707	54	4.1	56	78	6	167	32	17	18	31	1.94
1136543--1136715	54	3.2	53	80	1	175	29	18	21	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140165--1140261	2	47.0	2	78	10	97	47	2	5	45	1.36
1140219--1140263	13	3.5	13	90	0	63	48	2	8	40	1.47
1140165--1140261	33	3.2	30	82	8	108	47	2	5	45	1.36
1140165--1140263	13	7.8	13	82	3	60	48	2	5	44	1.36
1140165--1140278	33	3.6	33	77	8	98	45	1	5	47	1.35
1140338--1140413	11	7.3	11	69	10	52	47	3	1	47	1.29
1140381--1140423	24	1.9	22	85	9	52	46	0	0	53	1.00
1140386--1140502	20	6.1	19	73	13	89	46	3	3	47	1.36
1140451--1140511	27	2.2	29	85	5	81	50	4	1	42	1.33
1140518--1140548	9	3.6	9	91	8	55	54	0	9	35	1.33
1140515--1140548	17	2.1	15	89	10	50	55	0	8	35	1.31
1140607--1140726	13	9.2	13	72	15	88	48	5	4	41	1.46
1140607--1140726	15	8.0	15	70	18	81	48	5	4	41	1.46
1140620--1140673	18	3.0	18	82	15	67	48	5	1	44	1.37
1140637--1140726	28	3.2	26	75	15	74	47	5	5	41	1.50
1140723--1140863	40	3.3	39	69	21	104	45	1	7	45	1.41
1140755--1140925	2	87.0	2	67	18	65	45	2	7	45	1.43
1140702--1140869	87	1.9	87	92	0	282	45	2	8	44	1.47
1140982--1141027	7	6.6	7	89	0	56	45	36	4	13	1.63
1141060--1141213	55	2.7	58	81	9	181	41	7	8	42	1.64
1141210--1141300	21	4.3	20	71	16	67	38	6	7	47	1.58
1141205--1141320	64	1.9	58	83	11	144	38	6	8	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141432--1141492	31	2.0	31	90	6	97	40	4	3	50	1.40
1141509--1141549	21	2.0	20	85	4	55	43	0	2	53	1.13
1144343--1144403	23	2.7	23	87	2	79	26	14	26	32	1.95
1144978--1145015	13	2.8	13	82	17	51	60	0	2	36	1.11
1144979--1145121	70	2.0	70	89	10	222	58	1	4	35	1.26
1145044--1145082	14	2.7	14	88	11	53	56	5	2	35	1.35
1145113--1145166	27	2.0	26	82	10	65	50	3	1	44	1.30
1145320--1145382	26	2.4	26	100	0	126	17	19	28	34	1.94
1148567--1148614	20	2.5	20	86	10	64	47	4	16	31	1.65
1165155--1165222	26	2.6	26	97	0	127	38	20	14	26	1.91

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