genome.fa.s9605.2.7.7.80.10.50.1000.7.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  7  of  35  ( 4090 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)
1198483--1198579	42	2.3	41	80	1	113	26	21	22	28	1.99
1198479--1198591	42	2.7	41	74	6	111	28	21	21	29	1.98
1198841--1198922	42	2.0	42	87	0	119	26	23	20	29	1.99
1198706--1198975	135	2.0	135	87	1	389	31	19	20	28	1.97
1198971--1199056	42	2.1	40	89	4	127	25	17	23	33	1.96
1199427--1199739	53	5.9	53	84	4	373	30	21	25	22	1.99
1206186--1206556	52	7.0	52	83	4	397	27	23	12	37	1.90
1206127--1206496	103	3.5	104	84	5	431	27	23	12	36	1.91
1206186--1206461	26	10.7	26	64	15	124	26	24	11	37	1.89
1206447--1206564	60	2.0	60	87	0	173	30	20	11	37	1.89
1217454--1217551	23	4.3	23	74	0	70	21	18	24	35	1.95
1217454--1217551	46	2.1	46	84	0	124	21	18	24	35	1.95
1217483--1217555	23	3.2	23	78	0	83	19	16	27	36	1.93
1223612--1223675	29	2.2	29	81	13	78	39	9	17	34	1.82
1224231--1224277	24	2.0	24	100	0	94	36	12	8	42	1.74
1224577--1224702	40	3.2	40	83	2	155	26	11	29	32	1.92
1231996--1232388	54	7.3	54	92	0	615	32	15	17	35	1.90
1232469--1232769	81	3.7	82	88	4	416	36	10	23	28	1.89
1232740--1232832	49	2.0	47	89	6	143	30	17	25	26	1.97
1236533--1236580	18	2.7	18	93	0	69	33	10	20	35	1.87
1240089--1240128	21	1.9	21	90	10	64	25	20	17	37	1.94
1242802--1242862	25	2.4	25	77	0	68	37	16	9	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244932--1245158	112	2.0	111	88	2	330	30	16	19	33	1.94
1247096--1247164	30	2.3	30	94	0	120	40	1	0	57	1.07
1247109--1247175	30	2.2	30	89	5	100	46	1	1	50	1.19
1253916--1253956	15	2.7	15	88	0	55	48	31	17	2	1.60
1262398--1262627	113	2.1	113	93	1	392	29	16	18	35	1.93
1269758--1269784	3	9.0	3	100	0	54	0	0	33	66	0.92
1281122--1281169	17	2.8	17	96	0	87	22	16	22	37	1.94
1285178--1285252	38	2.0	38	100	0	150	41	18	18	21	1.91
1286615--1286711	44	2.2	44	100	0	194	31	6	21	40	1.78
1287500--1287538	16	2.3	18	86	8	55	64	5	5	25	1.35
1299969--1300016	23	2.1	23	88	7	71	37	10	6	45	1.64
1304775--1304836	30	2.1	30	96	0	115	22	19	25	32	1.97
1305491--1305539	19	2.5	20	86	3	64	46	6	12	34	1.66
1309498--1309540	18	2.4	18	92	0	68	27	30	9	32	1.88
1313144--1313194	21	2.7	19	77	16	61	70	3	0	25	1.04
1313645--1313772	28	4.6	28	96	0	238	29	13	17	39	1.88
1322506--1322553	19	2.5	20	86	3	62	27	25	18	29	1.98
1335003--1335040	8	4.8	8	81	12	51	71	2	26	0	1.00
1350838--1350908	20	3.5	20	92	3	108	35	15	28	21	1.94
1351558--1351684	47	2.7	47	91	1	191	24	10	16	48	1.77
1351721--1351822	52	2.0	52	86	3	143	26	15	21	36	1.93
1353438--1353518	30	2.8	29	79	3	83	40	6	14	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355054--1355115	26	2.4	27	83	5	67	53	1	4	40	1.32
1355074--1355142	22	2.8	26	82	17	101	49	1	8	40	1.43
1384195--1384316	22	5.5	22	72	16	90	43	3	8	45	1.50
1384169--1384316	69	2.1	68	81	4	172	46	3	6	43	1.46
1384213--1384346	49	2.7	49	83	6	162	44	2	5	46	1.43
1384276--1384315	21	2.0	21	85	5	55	40	2	7	50	1.44
1389948--1390377	196	2.2	196	81	6	485	30	16	13	40	1.86
1390081--1390494	196	2.1	196	80	4	451	29	15	12	42	1.83
1390546--1391155	199	3.1	199	86	2	800	33	14	13	38	1.85
1390976--1391338	177	2.0	178	82	6	434	32	12	13	42	1.81
1391318--1391361	23	1.9	23	86	9	63	47	6	9	36	1.62
1392712--1392742	6	5.2	6	92	0	53	48	12	3	35	1.58
1392712--1392749	12	3.1	12	88	3	58	47	10	7	34	1.67
1394083--1394217	63	2.1	64	97	2	263	46	7	18	27	1.75
1400510--1400560	24	2.1	25	96	3	95	37	21	15	25	1.93
1406194--1406236	22	2.0	22	82	13	54	37	9	6	46	1.63
1407128--1408478	199	6.9	197	79	7	1357	34	13	14	38	1.85
1407128--1407744	200	3.1	198	84	3	754	34	13	14	37	1.86
1407550--1407921	179	2.1	178	82	6	443	33	12	14	39	1.84
1407128--1408478	378	3.5	384	82	7	1520	34	13	14	38	1.85
1407729--1408477	194	3.8	196	82	3	841	33	12	14	39	1.84
1415081--1415436	189	1.9	186	84	4	482	30	16	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415551--1415593	21	2.0	21	90	0	68	32	18	13	34	1.90
1415556--1415613	20	2.9	19	84	7	62	25	20	12	41	1.87
1417033--1417072	15	2.7	15	100	0	80	40	17	15	27	1.89
1417459--1417624	58	2.8	60	81	4	176	32	19	4	43	1.72
1422115--1422158	20	2.3	19	88	7	63	36	22	20	20	1.95
1425611--1425648	18	2.1	18	100	0	76	23	39	15	21	1.92
1426067--1426112	20	2.4	19	81	3	56	34	26	2	36	1.69
1428949--1429139	14	13.4	14	65	28	75	36	9	1	52	1.42
1428950--1429139	22	8.5	22	73	19	112	35	10	1	53	1.42
1428949--1429012	30	2.1	29	83	11	76	34	9	3	53	1.49
1428949--1429140	35	5.4	36	71	19	136	35	9	1	53	1.41
1429058--1429134	28	2.8	26	86	11	102	36	9	0	54	1.32
1429552--1429594	2	22.0	2	95	4	79	51	0	0	48	1.00
1429835--1430338	33	15.2	33	68	20	154	49	2	9	38	1.48
1429871--1430058	2	92.0	2	65	24	65	47	3	6	43	1.45
1429968--1430274	38	8.4	38	71	18	133	48	1	8	40	1.45
1430045--1430221	32	5.5	32	72	11	137	48	1	10	40	1.44
1430123--1430188	28	2.3	28	89	7	98	46	1	10	40	1.47
1430110--1430467	22	17.3	22	67	23	120	50	1	10	37	1.47
1430159--1430399	40	6.1	39	69	19	119	51	2	9	36	1.47
1430313--1430465	28	5.2	27	69	17	92	50	1	10	37	1.45
1430456--1430836	22	17.2	22	71	14	139	37	8	2	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430504--1430599	8	12.9	8	80	17	100	34	9	2	54	1.45
1430598--1430622	2	12.5	2	100	0	50	52	48	0	0	1.00
1430622--1430709	2	46.5	2	74	15	80	40	1	2	55	1.20
1430622--1430687	20	3.3	20	91	6	100	42	0	3	54	1.15
1430627--1430830	56	3.5	61	71	21	168	36	4	2	55	1.34
1430629--1430866	22	11.2	21	75	18	151	37	4	2	55	1.34
1430625--1430869	36	6.5	37	71	23	108	38	4	2	54	1.34
1430622--1430869	71	3.6	70	76	13	185	38	4	2	54	1.34
1438168--1438249	23	3.6	23	75	11	89	24	26	23	25	2.00
1440109--1440212	46	2.3	46	85	6	133	36	18	15	29	1.91
1457344--1457384	17	2.4	17	87	0	55	39	19	12	29	1.88
1466486--1466553	18	3.8	18	84	0	73	38	7	20	33	1.81
1467893--1467917	2	12.5	2	100	0	50	48	0	0	52	1.00
1471777--1471827	23	2.3	23	89	3	77	23	17	37	21	1.94
1477616--1477661	24	1.9	25	86	8	69	10	21	47	19	1.80
1492355--1492403	24	2.0	24	92	0	80	38	18	12	30	1.87
1506360--1506449	29	3.0	28	75	10	72	43	4	15	36	1.67
1511263--1511367	44	2.4	44	83	3	131	29	20	11	38	1.88
1512038--1512067	5	5.8	5	96	4	51	83	0	0	16	0.65
1519253--1519296	22	2.0	23	86	4	63	27	9	13	50	1.72
1520951--1521029	18	4.3	19	87	4	99	18	29	27	24	1.98
1520951--1521030	37	2.2	37	84	6	108	20	28	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521055--1521222	29	5.9	29	86	5	227	37	6	20	35	1.79
1521056--1521222	57	2.9	57	88	4	232	37	6	20	35	1.79
1521055--1521222	86	2.0	85	89	3	257	37	6	20	35	1.79
1535751--1535809	20	2.8	21	74	10	57	16	25	35	22	1.95
1536924--1536974	24	2.1	24	100	0	102	25	33	7	33	1.85
1544471--1544632	29	5.6	28	84	7	200	38	7	21	32	1.81
1544472--1544623	57	2.6	56	87	5	196	39	7	21	31	1.82
1544471--1544632	86	1.9	86	85	5	229	38	7	21	32	1.81
1556181--1556215	14	2.5	14	90	0	52	28	5	17	48	1.69
1569071--1569128	29	2.0	30	89	3	91	36	15	5	43	1.69

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