genome.fa.s8750.2.7.7.80.10.50.1000.7.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2144 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)
1236563--1236681	17	6.8	18	72	21	85	55	2	6	35	1.40
1236564--1236651	22	3.8	22	78	14	95	56	1	6	35	1.33
1236688--1236738	2	25.5	2	77	15	52	50	1	3	43	1.31
1237217--1237268	2	28.0	2	81	14	67	50	1	0	48	1.12
1236691--1237692	532	1.9	532	87	6	1505	33	11	5	49	1.62
1238932--1238971	21	2.0	20	85	5	53	35	27	17	20	1.95
1238984--1239033	20	2.5	21	84	15	70	26	28	12	34	1.92
1240346--1240396	17	3.1	16	77	8	57	66	0	25	7	1.18
1241148--1241222	30	2.5	30	97	0	141	25	12	13	49	1.76
1244534--1244570	19	1.9	19	88	0	56	51	8	10	29	1.65
1249530--1249768	120	2.0	120	100	0	478	38	15	27	19	1.91
1249924--1250039	2	60.0	2	86	6	168	49	2	0	47	1.21
1251517--1251771	127	2.0	127	100	0	510	41	15	19	22	1.89
1253165--1253265	32	3.2	31	75	6	87	41	11	11	34	1.79
1254038--1254075	20	1.9	20	94	0	67	47	10	21	21	1.80
1254038--1254080	20	2.3	18	84	11	52	48	9	20	20	1.77
1254525--1254560	15	2.4	15	100	0	72	27	16	22	33	1.95
1255357--1255447	40	2.3	40	100	0	182	31	8	10	48	1.69
1255809--1255852	23	1.9	23	90	0	70	59	4	4	31	1.38
1263396--1263445	19	2.6	19	96	0	91	26	22	30	22	1.99
1264563--1264618	27	2.1	27	82	0	67	32	12	41	14	1.83
1269928--1269967	21	1.9	21	89	0	62	30	7	7	55	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271857--1272011	64	2.4	64	87	7	217	31	19	20	28	1.97
1273025--1273074	2	25.0	2	100	0	100	50	0	0	50	1.00
1281091--1281143	28	2.0	28	82	10	67	39	0	3	56	1.17
1286754--1286800	20	2.3	21	85	10	62	42	2	2	53	1.25
1287209--1287273	27	2.4	27	86	0	85	18	7	40	33	1.79
1290581--1290621	20	2.0	20	90	0	64	68	0	9	21	1.18
1291620--1292010	49	8.0	49	78	3	293	38	27	14	19	1.90
1292112--1292262	34	4.4	34	80	3	169	40	21	9	28	1.85
1293417--1293538	42	2.9	41	82	3	136	30	18	24	26	1.98
1299915--1299941	2	13.5	2	100	0	54	51	0	0	48	1.00
1303156--1303204	23	2.1	23	84	0	62	46	20	16	16	1.83
1303204--1303327	21	5.8	21	69	9	79	36	25	16	22	1.94
1305550--1305645	31	3.1	31	84	3	122	23	19	23	32	1.98
1307109--1307142	2	17.5	2	93	6	61	50	0	0	50	1.00
1307895--1308563	106	6.3	106	89	0	881	23	18	23	34	1.96
1310273--1310323	22	2.3	22	93	0	84	25	11	25	37	1.90
1310925--1310995	37	1.9	37	85	0	97	1	16	11	70	1.23
1310938--1311015	16	4.6	17	72	22	67	0	17	7	74	1.05
1315053--1315093	2	20.5	2	100	0	82	51	0	0	48	1.00
1323477--1323536	29	2.0	31	90	6	97	35	6	16	41	1.75
1323611--1323665	19	2.9	19	86	0	74	41	10	9	38	1.72
1323771--1323811	21	2.0	21	90	0	64	26	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323841--1323880	20	1.9	21	85	10	55	37	37	10	15	1.80
1325911--1325957	23	2.1	23	84	7	62	42	21	17	19	1.89
1325961--1326049	21	4.1	21	78	5	79	32	25	15	25	1.96
1326013--1326098	21	4.0	22	79	10	79	39	19	15	25	1.91
1330982--1331036	23	2.4	23	96	0	101	23	14	25	36	1.93
1331112--1331188	26	2.6	31	74	21	92	15	14	28	41	1.86
1331118--1331181	26	2.5	26	92	0	110	17	14	26	42	1.87
1331353--1331445	37	2.5	37	78	3	116	11	9	40	37	1.75
1331606--1331693	38	2.4	37	84	7	133	12	11	36	39	1.79
1331170--1331741	258	2.2	244	84	10	697	24	12	27	35	1.91
1332273--1332317	18	2.6	18	93	6	76	28	31	6	33	1.83
1333334--1333404	25	2.7	26	86	4	90	33	2	0	63	1.09
1336685--1336713	13	2.1	14	93	6	51	62	0	0	37	0.96
1340831--1340898	3	22.7	3	100	0	136	66	0	0	33	0.92
1349301--1349325	12	2.1	12	100	0	50	16	0	24	60	1.36
1352601--1352642	21	2.0	21	95	0	75	23	16	23	35	1.95
1352663--1352706	21	2.1	21	100	0	88	22	27	25	25	2.00
1353165--1353287	31	4.0	31	81	4	104	39	18	17	25	1.92
1353181--1353289	31	3.5	31	84	0	137	42	18	16	22	1.89
1384588--1384630	18	2.4	18	80	7	52	44	6	6	41	1.58
1386590--1386662	24	3.1	24	84	5	96	30	20	27	21	1.98
1386788--1386840	15	3.5	15	77	10	54	32	22	7	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1389055--1389186	41	3.2	40	69	15	126	32	15	18	32	1.93
1389030--1389243	82	2.6	82	82	3	243	32	14	17	34	1.91
1391554--1391612	31	1.9	31	92	0	100	25	20	15	38	1.91
1391996--1392090	3	31.7	3	84	0	73	41	0	58	0	0.98
1391999--1392081	33	2.5	33	98	0	157	43	0	56	0	0.99
1393126--1393189	29	2.2	29	97	0	119	35	28	7	28	1.85
1393174--1393281	31	3.5	31	87	0	153	26	26	12	34	1.92
1406822--1406859	20	1.9	20	100	0	76	23	23	21	31	1.98
1409231--1409277	21	2.2	22	85	11	62	68	2	2	27	1.13
1409616--1409665	6	8.0	6	86	8	73	34	2	0	64	1.05
1409875--1409928	24	2.3	23	80	3	63	37	1	1	59	1.19
1410937--1410976	20	2.0	21	85	14	57	42	5	7	45	1.54
1411144--1411352	65	3.2	63	83	7	233	30	23	17	27	1.97
1413418--1413457	20	2.0	21	85	14	57	37	15	5	42	1.68
1413417--1413461	20	2.2	20	80	11	56	40	13	4	42	1.64
1418350--1418393	21	2.1	21	86	0	61	9	36	15	38	1.80
1419372--1419580	65	3.2	64	80	8	219	31	24	16	27	1.96
1419419--1419582	65	2.5	65	85	2	224	31	26	15	27	1.96
1427079--1427105	9	3.0	9	100	0	54	66	0	0	33	0.92
1428794--1428845	2	26.0	2	100	0	104	50	0	0	50	1.00
1431486--1431535	24	2.1	24	85	7	66	26	2	12	60	1.43
1432006--1432039	17	2.1	16	88	5	50	14	8	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441442--1441491	24	2.1	24	85	7	66	26	2	12	60	1.43
1441966--1441999	17	2.1	16	88	5	50	14	8	0	76	1.01
1444031--1444132	42	2.5	41	83	1	132	23	22	22	31	1.98
1443942--1444628	233	2.9	233	87	2	984	31	16	16	35	1.91
1444871--1444925	22	2.5	22	75	3	56	29	1	1	67	1.11
1449678--1449730	23	2.3	23	96	0	97	33	3	16	45	1.66
1451604--1451655	21	2.5	21	81	3	61	38	19	25	17	1.93
1451644--1451798	20	7.7	20	82	6	152	32	23	18	25	1.97
1451664--1451798	61	2.2	61	83	0	180	33	23	17	25	1.96
1452467--1452521	25	2.2	24	78	15	58	20	9	18	52	1.71
1454177--1454222	20	2.3	20	84	0	56	39	26	19	15	1.91
1454188--1454243	20	2.8	20	81	2	69	39	21	23	16	1.92
1454232--1454289	14	3.9	14	79	16	71	48	24	17	10	1.78
1454216--1454294	32	2.4	33	95	2	142	46	22	18	11	1.81
1454310--1454365	20	2.8	20	86	7	71	16	23	23	37	1.93
1456235--1456270	14	2.6	14	90	0	54	30	0	22	47	1.52
1456496--1456583	20	4.4	20	75	5	97	17	22	22	37	1.94
1456797--1456846	20	2.5	20	80	0	73	22	18	22	38	1.94
1456811--1456876	20	3.2	20	76	4	69	21	18	21	39	1.93
1457697--1457750	24	2.2	24	90	0	81	22	16	20	40	1.91
1457924--1457948	12	2.1	12	100	0	50	72	0	28	0	0.86
1460219--1460369	19	8.7	19	68	21	98	41	19	22	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460239--1460365	33	3.8	33	88	4	202	42	19	22	14	1.88
1460240--1460372	66	2.0	66	97	0	248	41	19	22	16	1.90
1460365--1460439	19	4.2	19	75	16	70	14	21	21	42	1.88
1460396--1460440	19	2.4	19	96	0	81	13	20	20	46	1.83
1460547--1460583	14	2.6	14	82	0	56	45	21	0	32	1.52
1461979--1462142	42	3.9	41	79	4	168	23	17	37	21	1.94
1461970--1462145	84	2.1	84	97	0	334	24	17	36	21	1.94
1462366--1462550	91	2.0	90	90	6	291	47	18	12	22	1.82
1464253--1464349	33	2.9	33	92	1	158	41	21	25	11	1.87
1464228--1464373	19	8.1	19	71	17	114	43	19	25	12	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18