genome.fa.s885.2.7.7.80.10.50.1000.5.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: VEPZ01000885.1 Hibiscus syriacus cultivar Beakdansim tig00001728_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1639497

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 787 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)
1011088--1011141	16	3.3	17	80	15	60	55	16	7	20	1.65
1011805--1011891	13	6.7	13	80	15	108	48	16	11	24	1.79
1011805--1011891	26	3.3	26	87	6	124	48	16	11	24	1.79
1011805--1011902	39	2.5	39	83	9	121	47	14	13	24	1.79
1011805--1011902	13	7.6	12	79	15	90	47	14	13	24	1.79
1013783--1013856	30	2.5	30	84	0	94	20	21	16	41	1.90
1014890--1014916	10	2.7	10	100	0	54	48	22	0	29	1.51
1014918--1014947	12	2.5	12	94	0	51	46	23	0	30	1.52
1016370--1016408	18	2.0	19	85	14	53	12	10	20	56	1.65
1020106--1020143	14	2.7	14	84	15	60	26	7	21	44	1.79
1023463--1023624	55	3.0	55	86	2	193	36	16	16	30	1.91
1035747--1035784	19	2.1	18	85	9	51	21	23	28	26	1.99
1035772--1035926	64	2.4	63	88	6	217	30	18	21	28	1.97
1044489--1044526	20	1.9	20	94	0	67	23	21	28	26	1.99
1054989--1055035	19	2.5	19	82	3	60	70	0	10	19	1.16
1055226--1055310	23	3.6	23	77	16	77	67	0	4	28	1.11
1055236--1055310	24	3.1	24	81	11	82	68	0	4	28	1.08
1055356--1055391	2	18.0	2	100	0	72	50	0	0	50	1.00
1055446--1055476	2	15.5	2	100	0	62	51	0	0	48	1.00
1055364--1055560	82	2.4	83	84	10	235	56	3	6	34	1.39
1055530--1055560	2	15.5	2	93	0	53	51	3	0	45	1.17
1056009--1056101	37	2.5	37	85	0	114	31	12	13	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056883--1057481	207	2.9	205	85	4	760	22	18	24	35	1.96
1056995--1057481	106	4.6	106	83	4	601	22	18	24	35	1.95
1056862--1057481	313	2.0	304	84	6	800	22	19	24	34	1.96
1057490--1057609	43	2.8	44	88	3	174	25	15	30	28	1.96
1058375--1058450	36	2.1	37	90	7	120	35	14	25	25	1.93
1059111--1059172	24	2.5	24	86	2	88	43	1	17	37	1.59
1059999--1060056	22	2.6	22	84	13	66	1	13	5	79	0.98
1059999--1060056	21	2.6	21	86	8	71	1	13	5	79	0.98
1068260--1068335	36	2.1	36	97	0	143	43	14	10	31	1.79
1068782--1068875	37	2.5	37	89	0	134	34	10	14	40	1.81
1071494--1071546	21	2.5	21	96	0	97	37	13	15	33	1.86
1073518--1073552	15	2.2	16	90	10	63	51	0	14	34	1.42
1074374--1074499	48	2.8	45	82	10	157	31	19	7	41	1.80
1074382--1074513	48	3.0	41	78	16	117	31	19	8	40	1.81
1078425--1078476	17	3.0	17	75	11	52	3	23	1	71	1.13
1078432--1078487	23	2.4	23	80	16	71	5	19	1	73	1.12
1078478--1078520	16	2.9	15	90	10	63	6	11	2	79	1.02
1079619--1079725	45	2.4	45	82	4	117	30	20	18	29	1.97
1088153--1088192	21	1.9	21	89	0	62	10	25	40	25	1.86
1096330--1096481	65	2.4	63	83	10	184	29	23	19	26	1.98
1099235--1099344	43	2.4	43	85	7	130	32	17	9	40	1.81
1099219--1099344	48	2.8	47	82	8	145	30	19	8	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110635--1110699	33	2.0	34	82	11	82	49	13	4	32	1.63
1116929--1117306	55	6.9	54	85	7	243	34	18	17	29	1.94
1117075--1117378	55	5.5	55	88	2	416	35	19	18	26	1.94
1116927--1117353	110	3.9	110	82	4	429	34	18	18	28	1.95
1117037--1117353	165	1.9	163	87	1	463	35	18	17	27	1.94
1117616--1117754	45	3.1	45	89	1	199	46	5	22	25	1.74
1128916--1128949	2	17.0	2	100	0	68	50	0	0	50	1.00
1135321--1135366	12	3.8	12	76	21	51	15	4	4	76	1.11
1135320--1135366	24	2.0	22	88	8	67	14	4	4	76	1.09
1135327--1135372	24	1.9	24	86	0	65	15	8	4	71	1.26
1140001--1140039	20	2.0	20	89	0	60	33	10	23	33	1.88
1144643--1144683	20	2.0	22	90	9	68	36	17	7	39	1.77
1150102--1150199	36	2.7	35	85	4	142	27	5	28	38	1.78
1154177--1154235	3	20.3	3	75	13	52	27	3	1	67	1.16
1154177--1154235	29	2.1	28	87	9	86	27	3	1	67	1.16
1159411--1159436	2	13.0	2	100	0	52	50	0	0	50	1.00
1159731--1159763	14	2.3	15	89	5	50	75	0	21	3	0.93
1159730--1159794	15	4.3	15	75	11	60	78	1	18	1	0.91
1162160--1162184	4	6.2	4	100	0	50	0	24	0	76	0.80
1166124--1166250	63	2.0	65	85	3	177	45	3	4	45	1.42
1172694--1172889	64	2.9	67	78	13	199	41	4	9	44	1.57
1175825--1176034	55	3.8	55	84	3	253	32	15	15	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175825--1176041	110	2.0	109	84	6	287	32	15	15	36	1.90
1179199--1179252	22	2.5	22	90	3	83	12	24	11	51	1.72
1183462--1183692	55	4.3	54	85	2	275	29	18	18	34	1.94
1183482--1183716	110	2.1	108	81	5	276	30	16	17	34	1.93
1186216--1186338	55	2.2	55	82	0	156	31	11	17	39	1.86
1191355--1191557	55	3.7	55	84	4	250	30	15	18	34	1.93
1195219--1195292	9	7.8	10	69	13	50	35	1	1	62	1.12
1197601--1197697	46	2.1	46	83	7	117	26	21	10	41	1.85
1197692--1197837	46	3.2	46	84	1	186	23	21	7	47	1.76
1197847--1198001	81	1.9	81	93	2	267	29	23	10	36	1.89
1197934--1198410	68	7.0	68	87	2	638	31	24	13	30	1.94
1197934--1198402	204	2.3	204	89	0	704	31	24	13	30	1.94
1198585--1198902	57	5.6	56	87	4	386	35	16	10	36	1.84
1199318--1199370	20	2.7	20	80	11	63	24	32	13	30	1.93
1201654--1201929	125	2.2	123	82	5	340	28	19	17	34	1.95
1201609--1201968	166	2.2	166	87	2	510	28	19	18	33	1.95
1201568--1201968	41	9.7	41	79	5	360	28	19	18	33	1.95
1205796--1206232	43	10.2	43	79	7	399	22	20	21	35	1.96
1205796--1206232	85	5.1	86	79	9	412	22	20	21	35	1.96
1205796--1206232	128	3.4	128	83	5	483	22	20	21	35	1.96
1206412--1206458	2	23.5	2	100	0	94	48	0	0	51	1.00
1215071--1215163	45	2.1	45	91	0	150	29	22	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215171--1215304	46	2.9	46	93	1	223	19	25	10	44	1.82
1215313--1215465	81	1.9	81	90	0	243	31	19	10	38	1.86
1215401--1215809	68	6.0	68	89	0	568	30	24	14	30	1.95
1215401--1215776	204	1.8	204	92	0	635	30	23	14	30	1.95
1216022--1216282	57	4.6	57	90	1	389	39	16	7	36	1.77
1216636--1216688	22	2.6	19	85	8	61	32	18	15	33	1.92
1220314--1220725	182	2.3	182	88	2	605	42	13	16	26	1.85
1220553--1220931	162	2.3	162	94	0	659	40	12	17	28	1.87
1221670--1221708	20	2.0	19	85	5	51	46	10	15	28	1.78
1221576--1221983	200	2.0	199	89	0	627	39	13	15	31	1.86
1222809--1222851	19	2.3	19	91	0	68	30	4	9	55	1.52
1225287--1225316	12	2.5	12	100	0	60	16	0	43	40	1.48
1225631--1226325	200	3.5	199	86	3	866	39	14	15	30	1.87
1226347--1226508	87	1.9	87	85	0	225	35	12	9	42	1.76
1226433--1226481	23	2.1	23	85	7	64	34	18	10	36	1.85
1226968--1227043	26	2.9	26	96	0	134	3	35	10	50	1.56
1233850--1233883	15	2.3	15	94	0	59	35	0	0	64	0.94
1247430--1247536	39	2.8	40	86	9	150	47	11	6	34	1.65
1250278--1250336	24	2.5	24	88	0	82	28	22	27	22	1.99
1250333--1250406	23	3.2	23	82	0	76	33	24	18	22	1.97
1259621--1259659	20	2.0	20	84	0	51	35	23	7	33	1.83
1266513--1266558	22	2.0	23	84	12	60	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266534--1266577	18	2.4	18	96	0	79	50	0	2	47	1.13
1266534--1266577	9	4.8	10	76	18	51	50	0	2	47	1.13
1266955--1267060	29	3.7	28	86	8	133	19	33	31	15	1.93
1266955--1267065	58	1.9	58	85	3	152	18	34	32	14	1.91
1267539--1267606	28	2.4	28	85	4	75	30	0	16	52	1.43
1267554--1267607	28	1.9	28	96	0	99	29	0	12	57	1.36
1270671--1271695	60	18.2	60	77	15	1011	40	0	12	46	1.42
1270671--1270811	21	7.0	21	63	19	68	40	0	14	44	1.46
1270847--1271009	35	5.2	34	62	27	101	41	0	12	46	1.41
1270893--1270980	10	8.7	10	72	21	51	40	0	14	44	1.46

Tables:   1   2   3   4   5   6   7