genome.fa.s9074.2.7.7.80.10.50.1000.8.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: VEPZ01009074.1 Hibiscus syriacus cultivar Beakdansim tig00112507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2143704

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1290 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)
1288560--1289136	116	5.1	114	83	7	751	28	20	14	37	1.91
1288560--1289142	229	2.5	228	95	1	1035	28	19	14	37	1.91
1289938--1290599	83	8.0	83	97	1	1233	35	21	14	28	1.93
1303662--1303750	3	29.7	3	93	0	142	61	0	2	35	1.08
1307542--1307593	25	2.1	25	82	3	61	61	9	3	25	1.44
1310003--1310050	21	2.2	22	81	7	53	58	2	6	33	1.35
1313663--1313777	52	2.2	52	95	0	203	26	25	7	40	1.82
1316058--1316114	24	2.5	22	74	20	62	33	1	1	63	1.15
1316058--1316114	16	3.7	16	75	15	57	33	1	1	63	1.15
1318057--1318153	1	97.0	1	68	0	50	83	0	10	6	0.80
1318049--1318160	8	15.6	7	72	22	65	82	0	10	7	0.85
1318057--1318165	24	4.7	23	79	6	107	82	0	10	6	0.88
1318057--1318166	11	9.5	11	80	14	100	81	0	10	7	0.91
1319374--1319817	134	3.3	133	84	3	563	33	22	15	29	1.94
1319983--1320009	3	9.0	3	100	0	54	33	0	0	66	0.92
1321251--1321276	9	2.9	9	100	0	52	46	23	7	23	1.78
1321290--1321676	183	2.1	183	93	1	652	46	8	2	42	1.48
1335816--1335858	21	2.0	21	82	8	52	20	2	20	55	1.54
1338329--1338376	13	3.7	13	85	0	69	25	16	22	35	1.95
1340304--1340345	2	20.5	2	95	4	75	47	0	2	50	1.14
1344094--1344140	21	2.3	22	82	14	64	29	14	17	38	1.89
1346963--1347057	2	50.0	2	71	10	74	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346970--1347050	41	1.9	41	90	5	126	50	0	0	49	1.00
1347941--1348000	25	2.3	26	72	13	61	30	10	11	48	1.72
1350812--1350857	24	1.9	24	90	0	74	47	8	41	2	1.46
1355578--1355623	24	1.9	24	90	0	74	47	8	41	2	1.46
1357205--1357269	33	1.9	34	84	3	87	40	7	9	43	1.65
1359401--1359442	22	2.0	21	85	4	57	23	23	21	30	1.99
1361911--1361969	29	2.0	29	86	0	82	40	16	16	25	1.90
1362468--1362567	50	2.0	48	96	3	182	60	8	6	26	1.48
1366570--1366621	3	17.3	3	92	7	88	1	30	0	67	1.02
1370109--1370185	15	5.1	15	88	0	100	48	16	14	20	1.81
1373366--1373430	34	1.9	34	84	12	89	26	4	26	43	1.74
1378765--1378820	24	2.3	24	96	0	103	28	0	32	39	1.57
1380184--1380225	14	3.0	14	92	0	66	23	30	7	38	1.82
1392953--1393136	41	4.4	41	72	10	151	33	20	20	25	1.97
1392910--1393136	83	2.7	82	84	2	301	34	18	21	25	1.96
1392915--1393131	42	5.2	42	71	16	164	32	19	22	25	1.97
1393117--1393384	41	6.5	41	83	8	298	33	17	18	30	1.94
1394598--1394708	42	2.7	41	74	4	114	30	16	19	33	1.94
1402813--1402959	21	7.0	21	81	1	82	40	17	37	4	1.71
1402844--1402957	42	2.7	42	80	2	113	42	18	35	3	1.68
1402867--1402957	21	4.3	21	87	0	101	42	18	34	4	1.70
1403468--1403720	86	3.0	86	77	8	246	31	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403488--1403719	129	1.8	128	84	8	319	30	24	20	25	1.98
1403366--1403720	43	8.3	43	74	8	215	30	24	17	27	1.97
1404542--1404595	25	2.0	27	86	13	76	59	3	14	22	1.51
1408847--1408891	14	3.2	14	90	0	63	48	8	6	35	1.61
1408852--1408899	14	3.5	13	80	11	51	43	10	6	39	1.64
1414370--1414407	19	2.0	19	94	0	67	7	47	13	31	1.71
1417642--1417681	18	2.2	19	86	4	55	30	2	5	62	1.29
1426457--1426502	17	2.7	17	93	0	74	19	39	34	6	1.78
1429456--1429508	23	2.2	24	93	6	90	32	20	3	43	1.70
1429460--1429507	13	3.9	13	81	15	66	31	20	4	43	1.71
1429466--1429516	23	2.2	23	86	6	68	33	21	5	39	1.78
1430169--1430226	20	2.6	22	89	10	84	25	22	20	31	1.98
1430214--1430375	64	2.5	63	81	8	184	23	24	19	32	1.97
1430842--1430881	20	2.0	20	95	0	71	27	20	32	20	1.97
1431171--1431240	22	3.0	23	80	16	90	51	17	14	17	1.77
1433307--1433340	14	2.5	14	90	4	52	23	20	38	17	1.93
1442870--1442917	14	3.4	14	76	0	51	10	14	22	52	1.72
1445413--1445572	79	2.0	80	98	1	313	26	12	13	46	1.79
1449342--1449374	17	1.9	17	88	11	50	60	0	36	3	1.12
1450573--1450599	2	13.5	2	100	0	54	51	0	48	0	1.00
1453578--1453655	41	1.9	41	97	2	149	46	3	23	26	1.69
1456425--1456456	15	2.0	17	88	11	50	31	15	6	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456556--1456595	13	3.3	12	86	10	55	85	5	5	5	0.85
1456537--1456594	29	2.0	29	83	6	73	79	5	10	5	1.05
1457914--1457946	15	2.1	17	88	11	52	33	12	6	48	1.65
1458448--1458485	18	2.2	17	90	4	58	44	2	0	52	1.14
1458474--1458505	12	2.7	12	90	0	55	37	0	3	59	1.13
1461191--1461231	21	2.0	21	86	13	59	73	2	19	4	1.13
1461795--1462164	191	2.0	183	94	5	643	25	10	13	50	1.73
1462351--1462394	15	3.1	15	75	24	51	25	9	11	54	1.65
1463194--1463248	27	2.0	28	82	7	67	45	10	1	41	1.50
1466198--1466270	18	4.1	17	73	16	51	73	2	23	0	0.95
1466192--1466267	20	3.7	20	80	15	84	72	2	25	0	0.98
1466195--1466259	34	1.9	34	84	6	87	72	3	24	0	0.99
1468966--1469157	100	1.9	101	80	8	221	30	18	11	38	1.87
1469196--1469265	36	1.9	36	94	0	122	25	20	15	38	1.92
1471328--1471533	75	2.8	76	91	4	332	28	1	12	58	1.43
1472156--1472197	17	2.4	18	92	4	68	21	7	0	71	1.09
1472220--1472286	27	2.4	27	78	11	73	22	8	0	68	1.17
1472245--1472294	19	2.5	20	83	6	66	22	8	0	70	1.13
1472236--1472294	19	3.1	19	75	4	57	23	6	0	69	1.12
1476665--1476712	21	2.3	21	100	0	96	10	22	22	43	1.84
1480617--1480658	17	2.4	18	92	4	68	21	7	0	71	1.09
1480720--1480760	17	2.3	19	79	8	50	26	4	0	68	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485013--1485150	38	3.7	38	82	2	154	43	6	5	44	1.54
1485233--1485280	8	6.0	8	85	0	60	43	18	14	22	1.87
1485234--1485280	24	2.0	24	87	8	69	44	17	14	23	1.85
1488219--1488272	26	2.0	28	82	7	67	37	14	12	35	1.85
1488791--1488831	20	2.0	20	90	0	64	14	14	19	51	1.77
1490333--1490480	42	3.5	42	86	0	188	26	37	16	20	1.93
1490579--1490639	21	2.9	21	76	9	70	18	11	34	36	1.86
1490455--1490822	183	2.0	183	100	0	736	23	28	20	27	1.99
1490762--1490826	21	3.1	21	78	8	78	18	10	35	35	1.86
1490843--1490948	42	2.5	41	77	8	106	19	9	33	37	1.84
1490902--1490948	21	2.2	21	84	0	58	19	12	27	40	1.88
1491236--1491367	21	6.3	21	82	3	124	21	37	15	25	1.93
1492944--1492982	20	2.0	20	94	0	69	12	15	23	48	1.79
1492899--1492978	34	2.4	34	76	0	88	13	15	27	43	1.84
1495510--1495555	24	1.9	24	95	0	83	34	17	19	28	1.94
1495513--1495564	24	2.2	24	85	0	68	36	19	19	25	1.95
1496488--1496715	20	11.4	20	67	12	110	33	14	21	30	1.93
1496489--1496643	40	3.9	40	75	8	145	38	12	20	29	1.88
1496589--1496677	41	2.2	40	81	2	97	33	17	19	29	1.95
1496720--1496779	20	3.0	21	78	7	61	36	18	16	28	1.93
1497170--1497208	17	2.2	19	86	9	55	5	20	2	71	1.17
1498723--1498753	2	15.5	2	93	0	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500102--1500142	22	1.9	21	85	14	57	24	2	4	68	1.22
1500814--1500854	22	1.9	21	85	14	57	24	2	4	68	1.22
1501326--1501369	20	2.2	20	84	4	54	45	4	2	47	1.35
1502268--1502310	16	2.7	16	85	7	52	32	0	2	65	1.06
1509606--1509688	42	2.0	43	90	2	132	27	19	13	39	1.89
1510837--1510879	15	2.9	14	80	10	50	53	2	4	39	1.34
1510969--1510998	13	2.2	14	94	5	53	46	0	0	53	1.00
1511160--1511323	82	2.0	82	100	0	328	24	15	21	37	1.93
1514576--1514621	18	2.6	18	92	0	74	32	6	13	47	1.68
1515948--1516502	276	2.0	277	97	1	1053	31	19	19	30	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11