genome.fa.s8933.2.7.7.80.10.50.1000.7.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: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2862162

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1568 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)
1257840--1257887	24	2.0	24	84	8	62	58	2	2	37	1.22
1263043--1263084	2	21.0	2	100	0	84	50	0	0	50	1.00
1263677--1263739	2	31.5	2	100	0	126	49	0	0	50	1.00
1272813--1272900	44	2.0	44	97	0	167	26	6	23	43	1.79
1272810--1273257	118	3.8	118	94	0	745	28	7	23	41	1.80
1272931--1273016	44	2.0	44	97	0	163	24	4	25	45	1.72
1273049--1273143	44	2.2	44	88	0	136	27	6	23	43	1.78
1273170--1273255	45	1.9	45	88	6	131	25	5	19	48	1.71
1275146--1275259	60	1.9	60	83	3	149	34	14	17	33	1.91
1285779--1285818	21	2.0	21	85	5	55	10	25	0	65	1.24
1291929--1291974	24	1.9	24	95	0	83	30	34	2	32	1.70
1292639--1292835	32	6.3	32	74	3	150	27	11	24	37	1.89
1292703--1292835	62	2.1	63	84	2	178	25	10	26	37	1.88
1292639--1292833	94	2.1	94	90	0	300	27	11	24	36	1.89
1292946--1293032	43	2.0	43	93	0	147	34	11	8	45	1.70
1297617--1297670	28	1.9	28	92	7	92	33	1	11	53	1.47
1298994--1299069	39	1.9	39	89	0	116	30	19	13	36	1.90
1300810--1300847	20	1.9	20	88	0	58	50	5	0	44	1.24
1301029--1301062	15	2.4	14	90	5	50	73	5	0	20	1.04
1301461--1301511	2	25.5	2	100	0	102	50	0	0	49	1.00
1303831--1303859	2	14.5	2	100	0	58	51	0	0	48	1.00
1308520--1308550	8	3.9	8	91	0	53	54	9	22	12	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313071--1313116	20	2.2	21	96	3	85	30	0	0	69	0.89
1313061--1313120	28	2.1	28	85	11	79	28	0	0	71	0.86
1314733--1314766	16	2.1	16	94	0	59	32	14	14	38	1.87
1317573--1317913	170	2.0	171	99	0	675	33	12	20	34	1.90
1320467--1320526	21	3.0	20	72	16	52	53	1	11	33	1.47
1320595--1320663	2	34.5	2	100	0	138	49	0	0	50	1.00
1321584--1321655	22	3.4	22	65	16	62	61	5	5	27	1.41
1321591--1321657	20	3.2	20	63	8	53	59	5	5	28	1.45
1322674--1322721	17	2.9	18	80	20	52	47	8	4	39	1.53
1325566--1325618	2	26.5	2	100	0	106	49	0	0	50	1.00
1330222--1330291	24	2.8	25	89	6	97	35	4	17	42	1.69
1330954--1331075	60	2.0	60	82	0	145	29	12	17	40	1.86
1336877--1336959	33	2.5	34	84	2	105	25	15	26	32	1.96
1340428--1340483	27	2.0	27	86	10	78	37	19	12	30	1.89
1341418--1341507	42	2.1	44	89	8	141	51	16	5	26	1.67
1342574--1342618	22	2.1	21	95	4	81	17	6	8	66	1.40
1345408--1345603	67	2.9	67	76	6	166	37	12	14	35	1.84
1349261--1349306	18	2.6	18	89	0	65	19	47	19	13	1.81
1353347--1353416	24	2.8	25	89	6	97	35	4	17	42	1.69
1355044--1355077	16	2.1	16	94	0	59	38	8	23	29	1.85
1362180--1362295	42	3.2	34	79	18	144	52	17	5	25	1.65
1362186--1362267	42	2.0	42	95	0	146	52	18	4	24	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363291--1363339	26	1.9	25	95	4	89	16	6	8	69	1.33
1363293--1363348	26	2.2	26	83	6	69	17	7	8	66	1.42
1365877--1365942	32	2.1	32	91	5	107	24	21	7	46	1.76
1372283--1372332	21	2.4	21	82	0	64	8	18	36	38	1.80
1382705--1382745	21	1.9	22	85	5	57	56	2	2	39	1.26
1385706--1386506	160	5.0	161	86	3	1080	26	14	20	38	1.91
1385706--1386502	319	2.5	320	87	3	1113	26	14	20	38	1.92
1386348--1386709	198	1.8	200	86	2	523	24	15	19	40	1.90
1390289--1390315	2	13.5	2	100	0	54	48	0	0	51	1.00
1398195--1398287	21	4.6	20	78	4	96	38	18	24	18	1.92
1398192--1398287	41	2.3	41	98	0	183	39	17	23	18	1.92
1398195--1398287	20	4.6	20	78	4	96	38	18	24	18	1.92
1398276--1398370	20	4.7	20	77	2	82	35	24	16	23	1.95
1398273--1398350	41	1.9	41	83	0	102	41	21	15	21	1.90
1400200--1400244	18	2.5	18	85	0	63	26	42	15	15	1.87
1400717--1400762	20	2.3	20	85	7	58	39	26	19	15	1.91
1400728--1400783	20	2.8	20	81	2	69	41	21	21	16	1.90
1400772--1400861	14	5.9	14	73	19	81	47	25	18	7	1.75
1400756--1400866	32	3.4	32	94	1	195	46	24	19	9	1.78
1400873--1401012	19	7.6	19	79	10	130	13	20	23	42	1.88
1400939--1400993	20	2.8	19	89	5	83	16	25	23	34	1.95
1400873--1401012	39	3.8	37	72	14	128	13	20	23	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402862--1402897	14	2.6	14	90	0	54	30	0	22	47	1.52
1403004--1403080	14	4.7	15	74	22	59	45	19	22	12	1.84
1403014--1403080	18	3.8	19	81	18	92	46	17	22	13	1.83
1404187--1404245	24	2.5	24	82	0	73	28	16	18	35	1.93
1404420--1404444	12	2.1	12	100	0	50	72	0	28	0	0.86
1406740--1406836	19	5.7	19	68	23	81	43	19	24	12	1.86
1406740--1406832	33	2.8	33	96	1	170	43	19	24	12	1.86
1406832--1406874	20	2.2	20	87	4	61	16	18	23	41	1.89
1406860--1406893	14	2.4	14	85	0	50	8	23	20	47	1.78
1407015--1407051	14	2.6	14	91	0	65	45	24	0	29	1.53
1408408--1408474	21	3.2	21	68	4	55	19	20	35	23	1.95
1408408--1408530	42	2.9	41	80	7	113	22	17	36	22	1.95
1410532--1410683	19	8.1	19	80	11	170	44	19	22	13	1.85
1410557--1410621	33	1.9	34	90	3	105	41	23	24	10	1.86
1410532--1410683	39	4.1	38	79	11	170	44	19	22	13	1.85
1411257--1411350	20	4.7	20	77	2	80	23	17	24	35	1.95
1411339--1411434	41	2.3	41	98	0	147	18	23	17	39	1.92
1411339--1411431	20	4.6	20	78	4	96	18	24	18	38	1.92
1415807--1415836	14	2.1	14	93	0	51	36	23	6	33	1.81
1418939--1418975	12	2.8	14	80	16	51	37	2	2	56	1.28
1422234--1422386	20	7.5	20	71	10	103	25	22	20	31	1.98
1422535--1422587	22	2.4	22	77	0	61	24	37	16	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422973--1423079	20	5.4	20	85	3	110	14	16	22	45	1.84
1424018--1424051	17	1.9	18	88	5	52	44	11	0	44	1.40
1424644--1424693	18	2.8	18	100	0	100	32	20	6	42	1.76
1424841--1424928	20	4.4	20	94	0	131	36	23	19	20	1.95
1424973--1425037	20	3.4	19	81	8	78	18	16	26	38	1.92
1425529--1425570	21	2.2	20	87	12	61	21	30	21	26	1.98
1425578--1425634	21	2.7	21	72	5	53	24	38	19	17	1.93
1425968--1426002	12	2.9	12	100	0	70	17	17	0	65	1.27
1427044--1427105	14	4.3	14	77	6	61	38	0	14	46	1.45
1427204--1427257	20	2.7	20	85	0	72	44	25	18	11	1.83
1427251--1427475	20	11.6	20	79	7	243	26	17	23	32	1.96
1427446--1427715	140	1.9	140	97	0	513	42	15	12	28	1.84
1427775--1427809	18	1.9	18	94	0	61	17	2	25	54	1.57
1430956--1431022	20	3.3	20	73	12	66	26	16	20	35	1.94
1434934--1434989	21	2.7	21	91	5	87	30	12	21	35	1.90
1435311--1435358	20	2.3	21	79	13	55	35	8	0	56	1.30
1436958--1436982	13	1.9	13	100	0	50	44	8	0	48	1.32
1443109--1443148	21	1.9	21	85	10	55	35	10	2	52	1.48
1453580--1453672	42	2.2	44	81	11	113	44	0	2	53	1.12
1453661--1453696	18	2.1	17	94	5	63	47	0	0	52	1.00
1464996--1465091	37	2.5	39	81	8	117	25	8	4	62	1.41
1474807--1474846	21	1.9	21	94	0	71	30	15	7	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1474841--1474939	33	3.0	33	92	1	155	32	7	14	46	1.71
1474950--1474979	13	2.3	13	94	0	51	43	0	10	46	1.37
1475175--1475231	21	2.7	21	91	0	96	19	26	26	28	1.99
1475398--1475453	15	3.6	15	79	9	67	30	12	12	44	1.79
1477576--1477637	32	1.9	32	96	0	115	54	11	11	22	1.67
1480125--1480339	45	4.8	45	88	1	306	26	20	4	47	1.69
1480125--1480374	135	1.9	135	83	3	333	25	20	4	48	1.69
1480112--1480386	90	3.1	90	83	5	263	26	20	5	47	1.72
1480536--1480716	68	2.7	68	91	1	274	32	22	14	30	1.94
1480883--1481040	55	2.9	55	88	2	221	25	20	20	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14