genome.fa.s8719.2.7.7.80.10.50.1000.4.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  4  of  18  ( 2140 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)
939970--940059	45	2.0	45	100	0	180	42	2	11	44	1.52
940507--940550	19	2.2	19	84	8	52	45	2	0	52	1.13
940525--940581	29	1.9	30	82	10	73	47	0	1	50	1.11
942038--942257	117	1.9	117	80	3	255	42	12	8	37	1.72
942643--942679	12	3.1	12	96	0	65	43	37	0	18	1.51
943029--943092	27	2.4	27	94	5	112	31	6	9	53	1.58
945093--945190	49	2.0	49	100	0	196	34	20	18	26	1.95
950169--950211	15	2.9	15	85	0	59	58	2	23	16	1.50
950362--950471	36	3.1	35	78	10	116	32	3	36	27	1.74
954175--954209	6	5.7	6	86	6	52	0	14	2	82	0.77
954175--954209	13	2.8	12	87	8	52	0	14	2	82	0.77
954478--954579	35	2.9	35	81	8	118	34	2	36	26	1.72
959931--959986	23	2.5	22	76	21	55	35	17	17	28	1.93
964218--964260	18	2.4	18	80	7	52	0	32	6	60	1.23
965950--965993	20	2.2	20	87	0	61	50	2	6	40	1.42
967062--967093	14	2.3	14	94	0	55	50	15	0	34	1.45
967901--968138	121	2.0	120	82	4	291	37	10	13	39	1.78
969442--969557	60	1.9	59	82	6	144	35	4	23	37	1.75
970640--970681	20	2.0	20	86	4	57	21	33	26	19	1.97
972641--972683	21	2.2	19	84	16	52	51	2	11	34	1.51
978419--978456	19	2.0	19	100	0	76	52	21	0	26	1.47
979694--979800	52	2.0	53	89	5	164	58	0	6	34	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979701--979801	24	3.6	28	70	20	86	57	0	6	35	1.26
980488--980546	24	2.6	22	89	7	84	38	8	0	52	1.32
984746--984791	22	2.1	22	84	8	58	21	6	15	56	1.61
988725--988755	10	3.1	10	95	0	53	22	32	19	25	1.97
995141--995188	21	2.3	21	96	0	87	29	10	37	22	1.88
996648--996716	33	2.1	33	89	7	106	27	30	11	30	1.92
997410--997499	25	3.5	25	69	19	69	74	2	16	6	1.13
999861--999889	2	15.0	2	92	7	51	48	0	0	51	1.00
1002163--1002204	19	2.2	19	95	0	75	19	14	16	50	1.79
1003885--1003951	27	2.6	26	80	20	79	49	0	2	47	1.16
1004078--1004138	17	3.4	17	71	20	52	40	3	3	52	1.34
1004404--1004449	22	2.1	21	88	4	65	52	0	2	45	1.13
1004373--1004497	30	4.1	29	66	22	76	46	0	4	48	1.26
1009543--1009961	106	4.0	106	84	5	544	23	14	12	49	1.77
1011093--1011146	27	2.0	27	100	0	108	44	3	14	37	1.63
1011094--1011141	16	3.3	16	67	27	52	47	2	14	35	1.56
1011093--1011154	27	2.4	27	91	5	92	48	3	14	33	1.60
1022886--1023175	139	2.0	147	93	6	506	22	10	13	53	1.70
1027465--1027702	76	3.1	76	85	8	317	31	13	13	41	1.84
1027450--1027638	36	5.0	39	70	10	122	32	14	13	39	1.84
1027535--1027662	36	3.4	36	69	12	105	30	14	12	42	1.82
1027707--1027987	39	7.2	39	89	0	400	29	18	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028580--1028621	22	1.9	22	90	0	66	33	42	0	23	1.55
1029086--1029191	2	55.0	2	72	17	73	44	2	1	50	1.27
1029359--1029440	2	42.0	2	95	4	150	48	0	0	51	1.00
1034582--1034655	30	2.5	30	82	4	96	33	20	22	22	1.97
1039014--1039064	27	1.9	26	88	4	75	52	0	5	41	1.25
1056200--1056244	22	2.0	24	86	8	67	51	2	2	44	1.26
1056309--1056384	31	2.3	32	85	14	95	50	0	1	48	1.09
1056328--1056405	33	2.3	35	74	12	83	44	0	2	52	1.14
1057204--1057430	29	7.7	29	81	7	215	56	2	3	37	1.30
1057204--1057413	59	3.6	58	79	8	210	57	1	3	37	1.26
1057284--1057340	16	3.5	17	65	29	52	64	1	0	33	1.04
1057204--1057438	88	2.7	89	81	9	268	56	2	3	37	1.29
1061297--1061354	2	30.0	2	89	6	93	50	1	0	48	1.11
1061297--1061362	27	2.4	27	97	0	123	48	3	0	48	1.17
1070544--1070606	29	2.2	29	85	0	81	15	19	20	44	1.87
1077326--1077520	98	2.0	98	98	0	381	31	12	18	37	1.89
1081543--1081582	21	1.9	21	84	0	53	32	12	20	35	1.90
1084768--1084861	45	2.1	45	95	0	170	44	11	28	14	1.81
1092944--1093038	44	2.2	44	86	0	136	38	12	21	27	1.89
1099381--1099427	24	2.0	24	82	0	58	36	6	0	57	1.24
1109550--1109581	15	2.1	15	94	0	55	40	21	15	21	1.91
1110044--1110077	2	17.0	2	100	0	68	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)
1110379--1110417	18	2.2	17	95	4	69	17	15	33	33	1.92
1114477--1114516	18	2.2	19	86	4	55	17	17	32	32	1.93
1118212--1118238	14	1.9	14	100	0	54	37	3	0	59	1.15
1118423--1118454	8	3.9	8	95	4	55	40	0	0	59	0.97
1118482--1118514	13	2.3	15	90	10	52	42	3	0	54	1.15
1119517--1119719	111	1.8	111	82	8	261	49	11	11	27	1.73
1130215--1130242	2	14.0	2	100	0	56	50	0	0	50	1.00
1131485--1131534	18	2.5	20	81	9	59	30	24	28	18	1.97
1131509--1131538	13	2.3	13	100	0	60	26	23	33	16	1.96
1144245--1144301	26	2.2	26	83	0	78	42	21	12	24	1.87
1145342--1145468	32	4.0	32	88	0	164	19	29	25	25	1.99
1145342--1145463	64	1.9	64	89	0	190	18	29	27	24	1.98
1150401--1150428	13	2.2	13	100	0	56	7	0	7	85	0.73
1150604--1150655	20	2.6	20	96	0	95	28	9	46	15	1.77
1151226--1151273	24	1.9	26	87	8	73	43	6	0	50	1.27
1151220--1151290	24	3.0	24	68	27	62	40	7	1	50	1.38
1151220--1151292	25	3.0	25	66	25	59	41	6	1	50	1.37
1153629--1153697	29	2.4	29	76	9	68	34	21	4	39	1.73
1156961--1157065	54	1.9	54	90	0	165	31	20	9	38	1.85
1163209--1163349	72	2.0	71	84	4	185	33	8	18	39	1.81
1163868--1163924	23	2.5	21	74	20	53	28	1	5	64	1.25
1167118--1167154	19	1.9	19	88	0	56	54	2	21	21	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169274--1169759	221	2.2	219	88	2	713	33	19	6	40	1.77
1169274--1169759	44	11.0	44	91	1	695	33	19	6	40	1.77
1169896--1170022	60	2.1	60	80	8	143	29	22	12	35	1.91
1169910--1170021	60	1.9	59	84	1	152	32	21	13	33	1.92
1170087--1170255	59	2.9	59	90	3	268	28	22	11	37	1.89
1170216--1170404	31	6.3	31	65	16	128	28	22	11	37	1.89
1170106--1170404	149	2.0	149	94	1	519	27	22	11	37	1.89
1170157--1170345	90	2.1	90	95	0	342	27	22	11	38	1.89
1170337--1170430	28	3.2	28	64	19	75	30	25	11	31	1.91
1170247--1170457	59	3.6	59	96	0	377	29	22	11	36	1.89
1171598--1171718	59	2.1	59	85	6	165	28	14	21	35	1.93
1175598--1175644	23	2.0	23	84	8	60	29	4	10	55	1.53
1184235--1184271	15	2.5	15	95	0	65	56	8	29	5	1.51
1184566--1184590	13	1.9	13	100	0	50	56	4	0	40	1.18
1184579--1184720	35	3.7	37	76	15	119	45	2	7	44	1.44
1184726--1184802	7	10.7	7	82	17	88	29	0	2	67	1.04
1184726--1184827	7	12.6	8	78	20	58	27	1	1	68	1.11
1184729--1184801	3	23.7	3	72	25	55	30	0	2	67	1.05
1184726--1184802	18	3.6	21	80	20	88	29	0	2	67	1.04
1191419--1191456	19	2.0	20	89	5	60	55	2	2	39	1.28
1191567--1191602	12	2.8	13	87	8	56	38	5	8	47	1.57
1193852--1193906	23	2.5	22	85	5	76	32	18	20	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196978--1197034	20	2.6	22	81	10	64	19	21	28	31	1.97
1197405--1197450	12	3.8	12	91	2	65	36	6	0	56	1.25
1199706--1199750	23	2.0	23	90	0	72	33	20	24	22	1.97
1208725--1208782	26	2.2	26	96	0	107	34	12	17	36	1.87
1213483--1213532	24	2.0	25	84	7	66	64	10	4	22	1.41
1220167--1220212	22	2.1	22	87	0	65	17	6	0	76	1.00
1226702--1226925	36	6.2	36	87	1	277	38	19	18	23	1.93
1227032--1227222	46	3.9	46	74	12	184	28	24	17	30	1.97
1226923--1227208	101	2.8	102	94	1	493	28	22	17	31	1.97
1227213--1227620	137	3.0	137	83	0	503	31	26	14	28	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18