genome.fa.s7822.2.7.7.80.10.50.1000.6.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: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1828853

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

This is table  6  of  10  ( 1099 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)
1051738--1051850	50	2.3	50	82	3	138	20	27	36	15	1.93
1052325--1052398	39	2.0	36	82	12	87	22	10	36	29	1.89
1052993--1053025	2	16.5	2	100	0	66	0	48	0	51	1.00
1069856--1069921	34	1.9	34	87	0	96	48	6	4	40	1.48
1075490--1075524	13	2.8	13	91	4	54	57	0	0	42	0.99
1076146--1076217	18	4.5	15	71	20	56	63	4	0	31	1.13
1076148--1076217	33	2.1	35	84	12	94	64	4	0	31	1.13
1085922--1085950	14	2.1	14	100	0	58	41	0	27	31	1.56
1092856--1092952	50	2.0	48	93	4	167	50	23	12	13	1.75
1100811--1100892	44	1.9	44	82	7	107	56	4	3	35	1.39
1103611--1103665	21	2.7	19	86	11	65	63	0	16	20	1.31
1103836--1103931	43	2.2	44	81	9	108	61	4	3	31	1.30
1103867--1103932	12	4.9	13	75	20	57	62	1	1	34	1.14
1104683--1104707	13	1.9	13	100	0	50	76	0	0	24	0.80
1114910--1114934	13	1.9	13	100	0	50	76	0	0	24	0.80
1119973--1120056	42	2.0	42	97	0	159	25	19	17	38	1.93
1124874--1124908	14	2.5	14	90	0	52	28	20	34	17	1.95
1124883--1124909	14	1.9	14	100	0	54	29	14	33	22	1.94
1131029--1131093	16	4.1	16	89	0	103	58	21	10	9	1.59
1131569--1131600	14	2.3	14	100	0	64	50	28	15	6	1.68
1135867--1135932	31	2.2	31	88	2	98	31	25	9	33	1.87
1136281--1136322	2	21.0	2	85	9	59	45	2	0	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136281--1136333	17	3.1	17	79	15	65	43	1	1	52	1.23
1137548--1137602	21	2.6	22	85	5	69	16	5	5	72	1.22
1137991--1138026	14	2.7	13	87	8	54	19	0	5	75	1.00
1138194--1138246	21	2.5	21	78	0	61	20	20	20	37	1.94
1138236--1138346	20	5.6	20	89	2	161	37	15	19	27	1.92
1138315--1138422	20	5.4	20	86	0	135	28	25	18	27	1.98
1139243--1139289	24	2.0	24	91	0	76	23	21	19	36	1.95
1141658--1141692	18	1.9	18	94	0	61	54	25	2	17	1.57
1141861--1142031	20	8.9	20	77	7	165	33	19	18	28	1.96
1141861--1142035	60	3.0	60	80	11	184	34	18	18	28	1.95
1142074--1142112	20	2.0	20	100	0	78	10	20	23	46	1.81
1142074--1142127	20	2.7	20	88	5	65	12	18	25	42	1.86
1144268--1144334	20	3.5	18	82	11	80	37	26	17	17	1.93
1144279--1144334	20	2.8	20	88	0	85	37	25	17	19	1.94
1144379--1144424	20	2.3	20	88	0	65	23	17	21	36	1.94
1146328--1146415	20	4.4	20	79	1	79	47	22	14	14	1.81
1146802--1146854	22	2.4	22	83	0	70	20	15	37	26	1.92
1147010--1147156	20	7.3	20	91	0	213	23	19	27	28	1.99
1147143--1147211	21	3.3	21	83	2	77	33	18	20	27	1.96
1147172--1147212	21	2.0	21	100	0	82	39	17	24	19	1.92
1160342--1160442	21	4.5	23	75	16	88	28	22	22	25	1.99
1160342--1160439	45	2.2	44	87	5	135	28	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163085--1163217	64	2.1	64	80	8	146	35	22	13	28	1.92
1164467--1164508	22	1.9	22	95	0	75	11	23	40	23	1.88
1166674--1166735	3	20.0	3	80	12	72	33	1	0	64	1.03
1166666--1166735	28	2.5	28	81	6	81	32	1	0	65	1.01
1166664--1166735	31	2.3	31	81	11	92	31	1	0	66	1.00
1168246--1168288	20	2.2	20	86	0	59	32	0	2	65	1.06
1168344--1168400	29	2.0	29	86	6	80	47	1	0	50	1.11
1175959--1176031	24	3.0	24	100	0	146	32	4	16	46	1.66
1179635--1179685	16	3.5	15	74	17	54	76	0	21	1	0.88
1179636--1179685	13	3.8	13	82	10	57	78	0	20	2	0.86
1179640--1179680	19	2.1	20	86	4	57	78	0	19	2	0.87
1180434--1180770	114	3.0	114	95	0	611	32	15	21	30	1.94
1181458--1181849	113	3.5	113	90	0	570	37	15	18	28	1.91
1181899--1182214	112	2.8	110	81	12	381	37	12	18	30	1.89
1182548--1182609	3	20.0	3	77	12	63	30	3	0	66	1.08
1182548--1182609	28	2.2	28	88	5	90	30	3	0	66	1.08
1183853--1183882	3	10.0	3	92	0	51	33	3	0	63	1.11
1183873--1183931	24	2.5	23	76	13	57	44	5	1	49	1.34
1184075--1184117	20	2.2	20	86	0	59	32	0	2	65	1.06
1184173--1184229	29	2.0	29	86	6	80	47	1	0	50	1.11
1185133--1185195	20	2.9	21	79	9	65	15	25	34	23	1.95
1194714--1194758	13	3.6	13	79	8	58	82	2	15	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195481--1195955	110	4.4	110	89	3	642	34	24	17	23	1.96
1196738--1196805	2	36.0	2	85	11	99	50	0	0	50	1.00
1196738--1196808	30	2.3	32	90	4	110	49	0	0	50	1.00
1196746--1196800	28	2.0	28	100	0	110	47	0	0	52	1.00
1197845--1197914	10	6.7	10	76	20	56	21	2	1	74	1.03
1197835--1197882	24	2.0	25	87	4	71	25	0	0	75	0.81
1197840--1197882	4	10.8	4	80	9	52	25	0	0	74	0.82
1197846--1197900	22	2.6	21	83	11	67	21	3	0	74	0.97
1197845--1197904	12	4.5	14	78	17	65	23	3	0	73	0.98
1198344--1198380	19	1.9	19	88	0	56	27	5	0	67	1.12
1200932--1201224	77	3.8	77	82	1	338	36	8	17	37	1.81
1200925--1201223	154	1.9	154	83	4	379	36	9	17	37	1.82
1201464--1201936	98	4.8	99	73	9	336	37	9	14	38	1.79
1201462--1201940	200	2.4	199	79	8	496	37	9	14	37	1.79
1202332--1202477	77	1.9	77	84	2	195	40	15	7	36	1.75
1202332--1202499	77	2.2	77	81	3	194	39	14	8	36	1.77
1202498--1202543	2	23.0	2	100	0	92	50	0	0	50	1.00
1203479--1203521	14	3.1	14	100	0	86	41	9	0	48	1.35
1204180--1204208	4	7.5	4	92	7	51	0	24	0	75	0.80
1210794--1210907	15	7.3	15	71	13	79	70	0	6	22	1.15
1210958--1211041	33	2.6	31	79	7	87	71	2	7	19	1.20
1211145--1211190	20	2.2	22	84	7	60	58	10	13	17	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212586--1212738	37	4.4	37	72	19	116	38	13	20	27	1.90
1212617--1212769	64	2.3	65	87	3	209	37	13	19	28	1.90
1212787--1212953	36	4.8	36	70	16	147	40	14	19	26	1.89
1212757--1212953	101	1.9	102	91	3	326	38	13	19	28	1.90
1213078--1214418	106	12.6	106	93	1	2101	23	17	25	33	1.96
1218278--1218322	3	14.3	3	86	4	54	68	0	2	28	1.01
1218278--1218395	15	7.5	15	70	15	69	69	0	5	23	1.16
1218444--1218527	33	2.6	31	79	7	87	71	2	7	19	1.20
1218629--1218674	20	2.2	22	84	7	60	58	10	13	17	1.62
1227271--1227313	20	2.2	20	86	0	59	34	20	13	30	1.92
1232238--1232279	20	2.1	20	86	0	57	35	21	11	30	1.90
1240435--1240468	7	4.9	7	100	0	68	85	0	0	14	0.60
1240426--1240468	21	2.0	22	90	4	70	81	0	0	18	0.69
1240842--1240920	16	4.6	17	73	16	56	60	5	1	32	1.26
1241250--1241288	16	2.5	15	84	8	51	66	2	2	28	1.18
1240618--1241361	370	2.0	371	98	0	1454	42	8	13	36	1.74
1242402--1242523	31	3.9	31	88	2	174	39	21	16	22	1.92
1244560--1244592	15	2.2	16	89	10	52	72	0	0	27	0.85
1244645--1244701	29	2.0	29	82	6	71	19	21	19	40	1.92
1245663--1245699	16	2.3	16	90	9	58	70	0	0	29	0.88
1245738--1245797	29	2.1	29	84	6	77	18	20	16	45	1.86
1246872--1246914	18	2.4	18	92	0	68	72	2	4	20	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248796--1248870	31	2.4	31	84	0	87	45	20	6	28	1.76
1248976--1249025	24	2.1	24	92	0	82	38	22	22	18	1.94
1250255--1250337	2	41.5	2	100	0	166	50	0	0	49	1.00
1251589--1251632	19	2.3	19	84	11	54	4	20	15	59	1.54
1252807--1252842	2	18.0	2	100	0	72	50	0	0	50	1.00
1257391--1257530	72	1.9	73	82	1	174	38	5	4	52	1.43
1260986--1261144	55	2.8	56	68	17	146	28	22	4	44	1.72
1261897--1261944	12	3.8	12	76	10	51	43	14	0	41	1.45
1270012--1270073	31	2.1	29	84	6	79	27	8	6	58	1.52
1272028--1272139	35	3.2	35	78	14	99	35	0	3	60	1.14

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