genome.fa.s2881.2.7.7.80.10.50.1000.7.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: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1746118

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 968 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)
1256477--1256570	18	5.0	18	78	10	107	26	29	21	22	1.99
1256475--1256570	38	2.5	37	83	6	138	26	29	20	23	1.99
1257052--1257358	159	2.0	153	93	6	525	34	14	4	45	1.66
1263438--1263476	19	2.1	19	100	0	78	25	28	5	41	1.77
1264579--1264606	2	14.0	2	100	0	56	50	0	0	50	1.00
1268776--1268935	42	3.9	42	95	2	281	28	14	21	35	1.93
1269633--1269670	13	2.8	14	84	8	51	34	2	31	31	1.72
1274760--1274797	20	1.9	20	88	0	58	10	26	36	26	1.89
1274759--1274841	21	3.9	21	76	11	71	14	25	36	24	1.93
1278642--1278681	21	1.9	21	85	10	55	35	10	2	52	1.48
1280993--1281054	30	2.0	31	90	9	101	12	11	48	27	1.76
1281411--1281714	95	3.2	95	68	11	285	21	17	31	29	1.96
1281241--1281812	193	3.0	193	95	0	993	23	16	30	29	1.96
1282437--1282467	15	2.1	15	93	0	53	12	29	12	45	1.80
1295009--1295043	18	1.9	18	100	0	70	11	14	45	28	1.79
1298298--1298401	52	2.0	52	100	0	208	28	28	15	26	1.96
1302373--1302449	31	2.5	31	78	6	84	27	27	27	18	1.98
1306505--1306542	7	5.4	7	87	0	58	36	0	18	44	1.50
1306506--1306546	14	3.0	14	96	3	75	36	0	21	41	1.54
1308905--1308958	2	27.5	2	96	3	101	50	0	0	50	1.00
1322081--1322105	6	4.2	6	100	0	50	0	52	0	48	1.00
1326781--1326813	11	2.9	11	95	4	57	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327977--1328068	38	2.4	38	83	0	103	38	31	10	19	1.86
1330318--1330380	23	2.7	23	85	5	72	47	0	1	50	1.10
1330340--1330380	12	3.4	12	81	18	50	46	0	0	53	1.00
1330364--1330443	28	3.2	26	81	18	82	56	1	0	42	1.07
1330364--1330463	29	3.6	26	78	17	96	54	2	0	44	1.11
1330361--1330443	22	3.6	23	73	26	61	57	1	0	40	1.06
1330469--1330534	31	2.2	31	82	17	86	51	1	0	46	1.10
1330479--1330544	31	2.1	31	81	10	73	57	1	1	39	1.17
1330994--1331106	42	2.7	42	92	0	190	50	16	14	18	1.78
1333650--1333698	24	2.0	24	84	7	64	48	10	2	38	1.48
1336076--1336153	41	1.9	41	97	0	147	35	20	17	25	1.95
1339975--1340130	40	3.8	40	76	5	145	35	19	18	25	1.95
1340001--1340110	20	5.4	20	82	2	148	40	19	19	20	1.91
1340001--1340130	40	3.2	40	82	1	152	39	19	19	22	1.93
1340097--1340184	20	4.4	21	83	12	105	31	21	19	27	1.97
1341024--1341077	24	2.2	24	93	0	90	20	18	20	40	1.91
1343486--1343576	20	4.6	20	88	2	139	36	24	21	17	1.95
1343561--1343646	33	2.5	33	84	3	100	44	17	22	16	1.87
1343662--1343756	33	2.8	33	88	3	127	13	22	21	43	1.87
1343728--1343780	20	2.7	20	96	0	97	15	22	26	35	1.93
1343882--1343918	14	2.6	14	86	0	56	48	21	0	29	1.50
1345304--1345407	21	5.0	21	77	3	102	24	18	35	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345300--1345407	42	2.6	42	80	5	130	23	17	37	22	1.94
1345892--1345940	20	2.5	20	100	0	98	38	26	20	14	1.91
1346004--1346141	20	7.2	20	81	9	164	16	20	20	42	1.89
1348039--1348127	20	4.5	20	82	1	99	47	23	15	13	1.81
1348467--1348540	22	3.4	22	83	7	96	22	13	37	25	1.91
1348729--1348842	20	5.7	20	84	2	156	21	19	19	39	1.93
1348711--1348842	40	3.3	38	81	9	147	21	19	20	37	1.94
1351912--1352032	34	3.6	34	83	7	165	61	4	18	15	1.48
1351912--1352018	34	3.1	35	90	4	173	61	3	18	15	1.48
1356983--1357032	20	2.5	20	96	0	91	32	16	16	36	1.90
1359274--1359330	25	2.2	26	84	3	71	19	33	33	14	1.91
1363273--1363305	5	6.6	5	100	0	66	21	21	18	39	1.93
1367322--1367377	24	2.2	24	84	12	69	33	3	0	62	1.12
1367322--1367377	26	2.2	24	84	12	69	33	3	0	62	1.12
1369256--1369306	12	4.1	12	80	14	50	15	5	0	78	0.93
1369530--1369562	13	2.5	13	95	0	57	36	3	0	60	1.12
1373244--1373494	95	2.6	98	86	5	350	31	18	17	31	1.94
1374598--1375580	84	11.7	84	86	0	1268	32	24	18	24	1.97
1377211--1377317	5	20.8	5	70	14	58	21	4	2	71	1.18
1377205--1377251	24	2.0	24	83	8	60	19	4	2	74	1.09
1377251--1377307	25	2.3	24	84	3	69	24	3	3	68	1.21
1377210--1377307	25	3.9	25	73	12	67	22	4	3	70	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377374--1377406	6	5.5	6	89	10	50	18	0	0	81	0.68
1377448--1377587	9	15.1	9	76	16	83	16	6	0	76	1.03
1377449--1377580	5	27.2	5	71	18	93	16	4	0	78	0.97
1377449--1377587	19	7.5	18	75	17	108	16	5	0	76	1.01
1377449--1377585	14	10.2	13	74	18	86	16	5	0	77	0.99
1385012--1385058	15	3.1	15	100	0	94	25	21	19	34	1.96
1386431--1386467	16	2.3	16	90	0	56	37	10	32	18	1.86
1388702--1388736	18	1.9	18	100	0	70	25	34	22	17	1.96
1389333--1389383	20	2.5	20	83	0	75	29	29	15	25	1.96
1393206--1393243	20	2.0	20	85	10	53	13	34	13	39	1.83
1394820--1394870	18	2.8	18	87	0	75	29	35	17	17	1.93
1408110--1408150	21	2.0	21	100	0	82	41	0	43	14	1.45
1413213--1413270	21	2.8	21	91	0	89	22	6	22	48	1.74
1420459--1420672	118	1.8	119	80	7	265	50	6	6	37	1.53
1420446--1420699	118	2.1	119	77	6	257	50	5	6	37	1.53
1421664--1421737	3	24.7	3	97	0	139	64	0	1	33	1.02
1421899--1422529	137	4.6	137	92	1	926	23	15	25	34	1.95
1421899--1422855	274	3.4	274	84	7	1234	23	15	25	35	1.94
1422502--1422553	24	2.2	24	96	0	95	30	13	19	36	1.90
1422365--1422690	161	2.0	161	96	0	607	24	15	24	35	1.94
1422228--1422809	298	2.0	298	94	0	1011	24	15	25	34	1.94
1422526--1422855	137	2.4	137	90	1	509	24	14	25	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428937--1429021	43	2.0	42	83	2	107	18	18	12	49	1.79
1430161--1430256	45	2.1	46	84	1	122	58	11	4	26	1.51
1432185--1432237	21	2.7	21	80	13	60	47	0	1	50	1.12
1436312--1436354	21	2.0	21	82	8	52	37	9	2	51	1.47
1438912--1438968	23	2.5	22	81	10	62	21	5	21	52	1.66
1443346--1443471	28	4.5	28	90	2	182	39	11	13	35	1.80
1447237--1447315	23	3.5	23	89	5	126	27	25	21	25	1.99
1450498--1450545	3	15.7	3	91	4	78	37	0	0	62	0.95
1451842--1451879	17	2.4	17	86	8	53	28	5	2	63	1.30
1452251--1452290	11	3.3	13	80	13	50	50	2	0	47	1.14
1455306--1455347	15	2.9	14	80	19	59	21	14	7	57	1.61
1461822--1461898	22	3.5	22	78	3	84	33	15	12	37	1.86
1462560--1463466	45	20.0	45	92	2	1442	24	22	19	34	1.97
1462560--1463466	272	3.3	271	93	1	1539	24	22	19	34	1.97
1462560--1463466	227	4.0	226	93	1	1496	24	22	19	34	1.97
1463676--1463726	24	2.1	24	85	7	68	45	0	0	54	0.99
1465398--1465437	11	3.3	13	80	13	50	50	2	0	47	1.14
1472104--1472155	27	1.9	27	96	0	95	50	7	34	7	1.60
1475786--1475891	18	5.9	18	89	0	167	24	33	23	18	1.97
1476659--1476716	20	2.6	22	89	10	84	25	22	20	31	1.98
1476704--1476844	64	2.2	63	80	7	151	25	23	17	33	1.96
1479993--1480022	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480282--1480403	18	6.8	18	86	0	163	28	32	18	19	1.96
1481171--1481208	20	1.9	20	94	0	67	26	18	21	34	1.96
1490274--1490307	17	1.9	18	88	5	52	8	14	29	47	1.75
1495230--1495267	14	2.7	14	95	0	67	5	13	42	39	1.66
1499276--1499339	20	3.3	19	80	8	74	35	14	25	25	1.93
1505098--1505172	36	2.1	36	97	0	141	34	0	12	53	1.38
1512452--1512486	18	2.0	18	88	5	54	40	0	22	37	1.55
1512705--1512744	22	1.9	22	85	10	57	40	0	5	55	1.22
1514131--1514163	17	1.9	17	100	0	66	36	24	15	24	1.93
1516400--1516442	18	2.4	18	92	0	68	30	18	16	34	1.93

Tables:   1   2   3   4   5   6   7   8   9