genome.fa.s7923.2.7.7.80.10.50.1000.5.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   39   40   

This is table  5  of  40  ( 4704 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)
1084142--1084276	41	3.3	41	84	4	148	38	20	20	20	1.94
1084204--1084297	20	4.7	20	80	2	89	34	24	17	24	1.96
1084815--1084895	19	4.5	19	73	16	73	46	24	17	11	1.80
1084891--1085074	19	10.1	19	77	15	174	11	22	22	43	1.85
1084962--1085049	33	2.6	33	92	1	140	11	25	25	38	1.89
1085017--1085074	20	2.9	20	80	10	64	13	24	18	43	1.87
1087064--1087156	42	2.2	42	82	0	114	21	38	16	23	1.92
1088543--1088578	14	2.6	14	95	0	63	30	0	25	44	1.54
1089318--1089437	33	3.5	33	88	10	186	12	21	17	48	1.80
1089318--1089471	19	8.6	19	84	11	193	12	22	18	46	1.82
1089318--1089476	71	2.2	71	93	0	264	13	22	17	47	1.82
1089356--1089454	52	1.9	52	93	0	171	13	20	17	49	1.79
1091451--1091506	20	2.9	19	86	5	85	35	23	25	16	1.94
1091507--1091546	14	2.9	14	100	0	80	50	27	15	7	1.70
1092128--1092172	18	2.5	18	85	0	63	11	15	46	26	1.79
1093905--1094018	20	5.7	20	77	10	90	25	16	24	33	1.96
1094007--1094099	20	4.5	21	78	4	100	17	24	18	39	1.91
1093946--1094080	41	3.3	41	84	4	148	20	20	21	37	1.94
1094007--1094099	41	2.3	41	100	0	186	17	24	18	39	1.91
1095597--1095670	38	1.9	38	83	5	96	41	5	13	39	1.67
1096055--1096102	22	2.2	22	92	0	78	22	45	8	22	1.79
1096471--1096576	19	5.4	20	88	5	155	12	16	19	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098316--1098413	21	4.6	23	68	12	50	21	13	33	31	1.92
1098698--1098877	21	8.6	21	72	7	141	21	35	18	23	1.96
1098700--1098838	63	2.2	63	94	0	242	22	36	18	22	1.95
1098700--1098854	63	2.5	63	90	2	222	21	36	18	23	1.95
1100228--1100260	13	2.4	14	95	5	59	30	0	21	48	1.50
1101943--1101992	25	2.0	25	92	0	82	46	22	6	26	1.74
1104664--1104717	24	2.2	24	90	6	83	40	20	16	22	1.91
1104843--1104876	12	2.8	12	90	0	50	14	0	29	55	1.40
1105471--1105510	16	2.5	16	83	0	53	67	0	5	27	1.11
1105631--1105740	20	5.4	20	81	10	82	30	12	25	30	1.93
1105652--1105882	20	11.6	20	77	9	166	26	14	25	32	1.94
1105631--1105823	40	4.8	39	79	6	165	27	13	24	34	1.93
1105684--1105883	80	2.5	81	78	7	194	26	14	26	33	1.94
1113636--1113668	14	2.4	14	90	10	50	78	0	21	0	0.75
1121008--1121077	20	3.3	21	70	16	63	44	4	2	48	1.37
1121039--1121300	89	2.9	89	91	1	409	45	6	9	38	1.64
1127989--1128058	20	3.3	21	70	16	63	42	2	4	50	1.37
1133993--1134030	13	3.0	13	85	14	53	78	0	21	0	0.74
1135294--1135345	24	2.1	25	85	3	70	44	17	19	19	1.87
1142381--1142422	16	2.6	16	88	0	57	45	11	30	11	1.77
1146536--1146602	35	1.9	35	84	6	91	20	19	20	38	1.93
1155605--1155646	16	2.6	16	85	11	50	57	0	23	19	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159897--1159936	21	1.9	21	85	10	55	0	20	2	77	0.88
1162022--1162047	10	2.6	10	100	0	52	7	11	0	80	0.89
1166381--1166425	24	1.9	23	81	4	54	37	6	26	28	1.82
1168496--1168536	19	2.1	20	95	4	75	4	12	4	78	1.07
1169035--1169096	19	3.2	19	95	2	106	45	4	12	37	1.64
1169035--1169104	19	3.6	19	94	1	104	42	5	14	37	1.69
1170194--1170235	16	2.7	16	82	10	52	40	14	11	33	1.82
1174038--1174092	5	10.8	5	77	13	51	1	18	1	78	0.94
1174038--1174093	11	4.9	11	76	23	62	1	17	1	78	0.92
1174044--1174094	18	2.9	18	85	11	70	1	17	3	76	1.03
1187957--1187983	10	2.7	10	100	0	54	0	37	0	62	0.95
1189349--1189405	23	2.7	21	83	8	62	22	19	28	29	1.98
1192814--1192869	19	2.8	20	83	5	78	37	7	12	42	1.70
1192814--1192856	20	2.2	20	91	4	70	44	4	11	39	1.62
1194702--1194919	104	2.1	104	98	0	418	43	12	16	27	1.84
1194747--1194913	51	3.2	50	67	19	144	44	10	16	27	1.81
1197463--1197601	63	2.2	63	92	2	226	35	19	24	20	1.95
1197491--1197594	34	3.2	33	68	18	101	32	22	25	20	1.97
1197509--1197606	34	3.0	34	66	16	82	32	20	24	22	1.98
1198679--1198913	117	2.0	117	97	0	443	40	12	17	29	1.86
1199708--1199736	10	2.9	10	100	0	58	37	10	20	31	1.86
1200777--1200896	60	2.0	59	93	1	204	27	16	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204548--1204596	20	2.6	19	77	6	55	61	0	20	18	1.35
1213175--1213243	18	3.8	18	94	0	120	17	18	34	28	1.94
1226980--1227071	42	2.2	42	98	0	175	14	16	26	43	1.85
1244693--1244737	20	2.2	20	92	0	72	26	22	13	37	1.91
1247194--1247238	21	2.2	21	88	4	65	20	4	24	51	1.66
1251273--1251305	12	2.8	12	90	0	57	42	6	6	45	1.53
1253508--1253593	24	3.6	24	95	0	145	12	12	23	51	1.74
1258409--1258618	65	3.2	64	79	12	232	25	19	24	30	1.98
1265278--1265437	65	2.5	65	86	5	209	26	19	23	30	1.98
1265278--1265487	65	3.3	63	80	12	205	26	18	24	30	1.98
1265845--1265895	16	3.3	16	89	5	79	11	9	17	60	1.57
1266219--1266304	41	2.2	38	78	19	95	45	0	0	54	0.99
1266218--1266334	40	2.9	40	82	11	132	47	0	0	52	1.06
1266299--1266343	21	2.1	22	88	12	67	53	0	2	44	1.13
1276265--1276338	36	2.1	36	100	0	148	33	10	10	44	1.74
1276559--1276600	17	2.5	17	96	0	75	9	30	11	47	1.72
1277914--1278074	80	2.0	80	97	0	304	37	19	19	22	1.94
1282933--1282966	3	11.3	3	100	0	68	32	0	0	67	0.91
1283235--1283269	18	1.9	18	94	0	61	57	25	8	8	1.57
1284344--1284421	20	3.8	21	74	5	79	32	21	11	34	1.89
1284343--1284421	41	1.9	41	86	0	113	31	21	11	35	1.89
1284590--1284627	16	2.5	15	84	12	51	28	5	0	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285219--1285253	12	2.9	12	91	0	52	57	28	0	14	1.38
1285379--1285425	24	1.9	24	91	4	76	25	21	17	36	1.94
1287701--1287736	18	2.0	18	94	0	63	55	25	2	16	1.55
1288030--1288144	60	1.9	60	89	0	176	46	23	17	12	1.81
1288030--1288144	20	5.8	20	89	0	158	46	23	17	12	1.81
1288303--1288346	20	2.2	20	83	0	52	18	18	22	40	1.91
1288312--1288349	20	1.9	20	94	0	67	15	13	23	47	1.81
1289847--1289943	21	4.6	21	82	8	108	23	19	35	21	1.96
1289847--1289940	42	2.2	42	86	3	127	23	20	35	21	1.96
1290516--1290576	21	2.9	21	100	0	122	9	14	40	34	1.79
1292093--1292164	20	3.7	20	94	1	128	48	20	19	11	1.79
1292701--1292738	19	2.1	19	90	5	60	47	10	13	28	1.76
1292744--1292789	20	2.3	20	96	0	83	17	13	26	43	1.85
1292783--1292849	20	3.3	20	79	8	91	22	17	19	40	1.92
1292764--1292854	40	2.3	42	83	11	127	21	15	19	42	1.88
1298067--1298114	19	2.5	20	82	3	62	52	6	12	29	1.63
1299639--1299714	21	3.6	21	81	8	75	21	21	27	30	1.98
1299631--1299714	42	2.0	43	83	9	109	21	21	27	29	1.98
1299659--1299714	22	2.7	20	81	13	69	23	17	28	30	1.97
1300590--1300699	21	5.8	19	71	21	79	75	0	16	7	1.07
1300633--1300699	9	7.5	8	76	17	53	79	0	16	4	0.90
1300634--1300693	24	2.5	23	81	7	75	78	0	16	5	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300633--1300698	14	4.8	13	75	14	62	78	0	16	4	0.90
1300633--1300708	8	8.3	9	73	21	52	77	0	18	3	0.92
1302614--1302968	134	2.7	132	83	6	425	28	23	17	29	1.97
1302862--1303192	111	2.9	113	87	1	452	30	25	15	28	1.96
1303662--1303725	3	21.3	3	93	6	112	32	0	0	67	0.91
1303984--1304018	18	1.9	18	88	0	52	57	22	8	11	1.61
1305620--1305645	13	2.0	13	100	0	52	38	23	7	30	1.83
1307576--1307628	23	2.4	22	90	6	88	3	43	20	32	1.70
1307582--1307628	23	2.0	23	100	0	94	4	48	17	29	1.65
1310787--1310835	24	2.1	23	92	7	82	40	0	0	59	0.98

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   39   40