genome.fa.s8228.2.7.7.80.10.50.1000.7.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  7  of  20  ( 2363 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)
1120909--1121255	26	13.7	26	76	12	207	43	8	2	45	1.46
1120964--1121180	12	17.5	12	71	14	102	42	8	2	46	1.49
1120915--1121167	87	2.9	85	86	4	328	43	9	2	44	1.49
1121185--1121246	27	2.5	24	87	10	81	46	8	0	45	1.32
1121176--1121247	11	5.9	12	74	17	60	47	8	0	44	1.33
1120979--1121255	113	2.5	112	83	10	368	43	8	2	45	1.46
1121204--1121250	12	4.1	11	81	8	58	44	4	0	51	1.21
1121425--1121459	17	2.0	18	94	5	63	37	5	0	57	1.23
1121457--1121693	49	4.8	49	94	0	411	45	11	0	42	1.46
1125083--1125123	22	1.9	21	85	5	55	0	31	2	65	1.05
1125458--1125511	28	1.9	28	96	0	99	57	12	0	29	1.36
1125488--1125536	21	2.3	21	82	3	62	53	14	0	32	1.41
1125931--1126057	65	2.0	65	95	0	227	29	18	29	22	1.97
1126203--1126272	29	2.4	29	92	0	113	11	35	28	24	1.90
1126738--1126864	65	2.0	65	93	0	218	24	31	16	27	1.96
1127260--1127308	21	2.3	21	78	3	53	30	2	14	53	1.52
1127285--1127347	28	2.2	30	88	5	94	30	1	11	57	1.43
1131096--1131283	49	3.8	49	94	0	331	41	0	11	46	1.43
1131490--1131536	12	4.1	11	86	8	67	53	0	4	42	1.20
1131489--1131542	23	2.6	21	76	23	60	51	0	3	44	1.19
1131486--1131534	11	4.2	12	80	15	59	55	0	4	40	1.19
1131485--1131818	26	13.3	24	76	13	162	46	2	8	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131549--1131594	12	3.7	12	77	11	56	47	4	6	41	1.49
1131523--1131715	87	2.3	86	84	10	254	44	2	8	44	1.49
1131617--1131818	14	16.2	12	72	15	117	45	2	8	43	1.47
1131636--1131730	3	32.7	3	72	6	52	51	2	6	40	1.39
1131688--1131733	9	5.2	9	84	5	67	54	0	8	36	1.32
1131692--1131724	17	1.9	17	93	0	57	51	0	9	39	1.34
1131922--1131966	24	1.9	24	86	4	65	40	2	4	53	1.33
1131933--1131974	17	2.5	17	80	0	57	40	0	2	57	1.12
1133195--1133228	14	2.4	14	90	0	50	50	2	0	47	1.16
1134341--1134386	22	2.1	22	95	0	83	36	13	2	47	1.54
1134360--1134455	30	3.2	30	82	12	108	45	11	2	40	1.52
1134341--1134416	22	3.1	22	72	25	71	40	13	1	44	1.51
1134636--1134675	21	1.9	21	100	0	80	57	15	0	27	1.38
1134705--1134798	29	3.0	29	79	11	98	50	8	0	41	1.33
1134704--1134758	18	3.4	18	65	31	52	52	9	0	38	1.33
1134747--1134810	31	1.9	31	84	12	83	43	7	0	48	1.32
1135286--1135375	23	3.9	23	94	0	153	40	17	23	18	1.92
1135295--1135369	12	6.5	12	75	7	75	42	17	21	18	1.89
1136039--1136087	25	2.0	25	91	0	80	30	12	14	42	1.82
1138862--1138902	18	2.3	18	87	4	57	31	7	0	60	1.24
1141222--1141306	35	2.5	33	81	14	100	25	8	9	56	1.59
1148723--1148771	13	3.8	13	91	0	80	30	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153739--1153780	8	5.2	8	88	0	66	71	0	28	0	0.86
1162276--1162336	20	3.0	20	83	9	63	1	4	14	78	0.99
1162283--1162325	18	2.3	18	88	4	59	0	2	16	81	0.79
1162283--1162336	20	2.8	20	88	2	74	0	3	14	81	0.82
1162293--1162336	9	4.6	10	80	8	56	0	4	11	84	0.77
1162294--1162336	19	2.3	18	92	4	68	0	4	11	83	0.78
1169578--1169611	15	2.3	15	90	5	52	8	20	41	29	1.82
1180015--1180060	19	2.3	20	85	7	67	47	2	23	26	1.63
1180091--1180154	31	2.1	30	83	11	78	35	6	23	34	1.80
1180504--1180551	24	2.0	24	88	8	71	37	12	8	41	1.73
1183541--1183599	23	2.6	23	80	0	64	16	23	27	32	1.96
1184030--1184085	2	28.0	2	100	0	112	50	0	0	50	1.00
1193778--1193878	51	2.0	51	94	0	175	31	21	10	35	1.88
1203059--1203166	46	2.4	45	84	7	139	33	20	17	28	1.95
1205421--1205573	65	2.4	65	85	5	195	28	18	21	31	1.97
1205421--1205623	65	3.1	62	79	12	180	27	18	22	31	1.97
1208232--1208328	43	2.2	44	83	5	117	24	19	24	30	1.98
1212205--1212250	15	3.3	15	76	17	62	50	17	4	28	1.65
1212198--1212260	27	2.3	27	97	0	117	47	17	3	31	1.63
1214131--1214231	46	2.2	45	87	1	139	32	20	17	28	1.96
1216954--1217189	51	4.6	51	81	1	276	50	14	10	24	1.75
1216954--1217190	101	2.3	102	86	1	323	49	14	10	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218536--1218628	3	30.0	3	84	6	105	32	1	6	60	1.29
1218536--1218628	16	6.0	15	83	6	105	32	1	6	60	1.29
1218559--1218628	19	3.7	19	88	5	106	32	1	2	62	1.18
1227273--1227319	24	2.0	24	83	8	60	34	21	10	34	1.88
1231844--1231910	17	3.9	16	79	11	71	79	0	16	4	0.90
1231859--1231910	22	2.3	23	80	12	63	78	0	15	5	0.92
1231845--1231902	26	2.3	25	84	3	71	79	0	17	3	0.87
1231868--1231910	13	3.2	13	81	12	52	76	0	16	6	0.99
1233828--1233874	2	23.5	2	100	0	94	48	0	0	51	1.00
1234230--1234279	11	4.5	11	77	5	55	22	2	0	76	0.89
1234227--1234272	23	2.0	23	91	4	76	26	0	0	73	0.83
1234238--1234284	23	2.0	23	87	0	67	23	2	0	74	0.93
1235347--1235423	35	2.2	35	92	0	127	44	20	0	35	1.52
1235360--1235442	35	2.4	35	85	0	112	42	28	1	27	1.63
1235927--1236209	148	1.9	145	90	3	453	45	8	6	38	1.61
1236388--1236464	35	2.2	35	86	4	102	37	1	19	41	1.60
1237377--1237402	12	2.2	12	100	0	52	38	34	0	26	1.57
1237562--1237811	124	2.0	124	89	3	378	43	9	6	41	1.61
1249173--1249215	16	2.6	16	77	3	50	51	20	0	27	1.48
1249257--1249315	29	2.0	29	100	0	118	49	13	13	23	1.78
1253950--1254008	29	2.0	29	90	0	91	49	11	11	27	1.74
1256505--1256576	35	2.1	35	100	0	144	19	20	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259619--1259738	54	2.2	54	86	0	177	30	30	14	24	1.94
1272251--1272330	34	2.4	34	82	0	88	58	17	10	13	1.62
1272310--1272379	24	2.9	24	91	0	113	57	14	12	15	1.66
1272266--1272338	34	2.1	34	87	0	110	54	19	10	15	1.69
1272309--1272378	14	5.6	14	71	25	57	58	12	12	15	1.63
1276196--1276268	20	3.6	20	68	17	60	36	24	15	23	1.93
1276262--1276320	19	3.4	18	69	23	54	49	18	20	11	1.79
1276262--1276355	33	2.8	33	93	0	152	48	19	21	10	1.78
1276355--1276412	19	3.3	19	73	26	65	10	17	25	46	1.79
1276355--1276444	33	2.7	33	87	3	119	11	17	23	47	1.79
1276551--1276584	14	2.4	14	95	0	59	44	20	0	35	1.52
1278481--1278547	19	3.5	19	87	4	98	44	22	23	8	1.81
1278493--1278554	20	3.2	20	86	4	99	50	17	22	9	1.75
1278591--1278674	33	2.5	33	92	0	141	8	20	23	47	1.77
1278610--1278699	19	4.9	19	77	15	109	10	22	20	47	1.79
1278591--1278699	33	3.1	33	86	7	137	9	21	21	48	1.77
1278790--1279165	94	4.1	94	94	2	620	46	18	12	21	1.82
1280887--1280937	19	2.6	19	87	3	66	39	23	23	13	1.91
1280858--1280937	20	4.1	19	79	6	88	45	18	21	15	1.86
1280933--1281013	33	2.5	33	91	0	126	9	19	22	48	1.78
1280990--1281053	21	3.1	21	82	6	78	10	17	17	54	1.70
1280997--1281068	20	3.6	19	83	5	72	12	13	19	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281361--1281426	22	3.0	22	84	0	87	22	13	37	25	1.91
1281603--1281714	20	5.6	20	80	8	102	21	21	20	36	1.95
1281601--1281714	41	2.8	41	86	2	151	22	21	20	35	1.96
1281711--1281756	21	2.2	21	84	7	58	43	17	21	17	1.88
1282203--1283825	226	7.2	226	90	1	2477	36	14	16	33	1.88
1283307--1283825	108	4.6	117	70	12	429	35	13	17	33	1.89
1284042--1284075	2	17.5	2	93	6	61	50	0	0	50	1.00
1288613--1288642	15	2.0	15	93	0	51	50	13	6	30	1.67
1289925--1289954	15	2.0	15	93	0	51	20	30	20	30	1.97
1299071--1299850	201	3.9	200	84	1	909	31	18	21	28	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20