genome.fa.s1840.2.7.7.80.10.50.1000.7.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: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2412736

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

This is table  7  of  12  ( 1360 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)
1271402--1271942	136	4.0	135	93	1	888	23	23	19	33	1.97
1271402--1271942	45	12.0	45	93	1	904	23	23	19	33	1.97
1272142--1272226	3	28.0	3	75	2	80	35	3	1	60	1.22
1285723--1285770	24	2.0	24	88	4	71	8	45	25	20	1.79
1294256--1294307	25	2.1	25	100	0	104	44	30	3	21	1.70
1303357--1303423	33	2.0	33	100	0	134	47	7	11	32	1.68
1309481--1309525	16	2.8	16	86	6	56	35	11	26	26	1.90
1309585--1309649	23	2.8	23	97	0	121	33	9	20	36	1.84
1309733--1310256	200	2.6	196	86	4	685	31	15	14	38	1.88
1310079--1310427	177	2.0	178	86	2	488	33	12	14	39	1.83
1312841--1312889	19	2.6	19	83	0	71	53	8	4	34	1.50
1314487--1315454	199	4.9	197	84	3	1168	32	15	13	38	1.87
1314486--1315454	400	2.4	399	85	3	1279	32	15	13	38	1.87
1316500--1316532	17	1.9	17	100	0	66	30	18	3	48	1.63
1316812--1316860	18	2.7	18	93	0	80	38	6	10	44	1.63
1317185--1317227	12	3.6	12	96	0	77	16	32	4	46	1.67
1317188--1317227	18	2.2	18	90	0	62	17	32	5	45	1.70
1318700--1319456	201	3.8	197	82	4	876	31	15	14	37	1.88
1321997--1322661	182	3.7	182	86	3	860	28	15	14	41	1.86
1323723--1323772	21	2.4	21	89	0	82	44	28	6	22	1.76
1326877--1326934	20	2.6	22	89	10	84	29	20	24	25	1.99
1327670--1327697	2	14.0	2	100	0	56	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)
1331788--1331950	65	2.5	64	80	11	172	33	19	23	24	1.97
1331938--1331995	20	2.6	22	89	10	84	27	20	25	25	1.99
1335373--1335438	23	2.9	23	76	0	69	21	28	21	28	1.98
1338391--1338514	63	2.0	64	93	1	214	33	29	23	13	1.93
1339086--1339161	15	5.3	15	72	15	70	56	2	0	40	1.13
1339092--1339174	42	2.0	42	97	0	157	55	4	1	38	1.29
1339094--1339160	21	3.2	21	64	16	57	59	2	0	37	1.13
1343615--1343655	20	2.0	21	85	4	57	39	4	0	56	1.21
1345427--1345690	43	6.2	42	80	6	289	50	5	18	26	1.68
1345427--1345699	85	3.2	85	81	6	302	51	5	18	25	1.66
1345427--1345753	43	7.7	43	77	10	269	53	4	16	24	1.63
1345665--1345755	41	2.2	42	88	2	130	61	5	10	21	1.49
1358403--1358562	29	5.4	30	72	12	118	18	12	9	59	1.59
1358409--1358553	59	2.4	58	81	8	150	20	12	7	60	1.56
1360415--1360477	31	2.1	30	85	8	83	15	17	12	53	1.72
1360547--1360604	22	2.7	22	94	2	100	51	8	13	25	1.70
1364577--1364624	24	2.0	24	100	0	96	41	20	4	33	1.72
1364577--1364630	24	2.4	23	90	9	85	40	20	5	33	1.76
1365122--1365295	65	2.6	68	81	8	196	30	15	11	42	1.82
1365003--1365226	119	1.9	119	82	8	285	30	16	12	40	1.85
1365144--1365350	69	3.1	66	80	12	190	31	16	13	39	1.87
1365396--1365710	134	2.4	133	80	5	379	23	32	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365628--1365838	83	2.5	82	85	3	287	26	31	17	25	1.97
1365989--1366035	3	15.0	3	83	16	60	31	0	0	68	0.90
1365985--1366040	13	4.7	12	79	18	55	30	0	0	69	0.89
1365984--1366030	16	2.9	16	84	12	60	29	0	0	70	0.88
1365984--1366040	19	3.2	18	81	18	75	29	0	0	70	0.88
1365989--1366035	22	2.1	22	92	7	78	31	0	0	68	0.90
1365989--1366035	16	2.9	16	87	6	69	31	0	0	68	0.90
1367311--1367478	29	5.7	29	74	10	137	17	11	10	60	1.59
1367311--1367461	59	2.6	57	75	11	144	19	11	7	60	1.55
1369323--1369385	31	2.1	30	85	8	83	15	17	12	53	1.72
1373469--1373516	24	2.0	24	100	0	96	41	20	4	33	1.72
1373469--1373522	24	2.4	23	90	9	85	40	20	5	33	1.76
1373895--1374118	119	1.9	119	80	8	267	30	16	12	40	1.86
1374014--1374187	65	2.6	67	81	9	185	31	14	11	43	1.81
1374307--1374602	134	2.2	133	82	6	341	23	32	19	24	1.98
1374520--1374712	40	4.6	43	65	13	125	26	32	17	24	1.97
1374520--1374729	83	2.5	83	90	0	330	25	32	18	24	1.97
1374518--1374728	43	5.0	43	64	14	127	25	32	18	24	1.97
1374882--1374928	3	15.0	3	83	16	60	31	0	0	68	0.90
1374878--1374933	13	4.7	12	79	18	55	30	0	0	69	0.89
1374877--1374923	16	2.9	16	84	12	60	29	0	0	70	0.88
1374877--1374933	19	3.2	18	81	18	75	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374882--1374928	16	2.9	16	87	6	69	31	0	0	68	0.90
1376203--1376371	29	5.7	30	77	9	161	19	12	8	59	1.59
1376210--1376385	59	3.0	60	76	12	184	18	13	8	59	1.58
1376327--1376392	31	2.2	30	83	8	80	16	12	10	60	1.58
1376203--1376392	29	6.4	29	76	8	116	18	13	9	58	1.61
1378591--1378627	12	3.1	12	88	0	56	37	0	0	62	0.96
1379682--1379729	19	2.5	19	100	0	96	43	6	20	29	1.76
1381167--1381349	60	3.1	59	76	7	174	34	18	4	42	1.70
1384214--1384253	21	1.9	21	84	0	53	45	2	2	50	1.28
1384999--1385038	9	4.6	9	84	6	55	35	0	2	62	1.09
1384998--1385031	17	2.0	17	100	0	68	35	0	5	58	1.22
1387249--1387291	13	3.4	13	80	3	52	16	2	11	69	1.28
1392611--1392653	15	3.1	14	90	9	70	37	0	4	58	1.19
1392613--1392657	13	3.4	13	90	9	65	40	0	2	57	1.11
1392613--1392686	13	5.1	14	74	21	55	41	2	1	54	1.23
1395273--1395310	16	2.4	16	86	8	51	52	2	0	44	1.14
1395273--1395315	14	2.9	14	82	6	50	51	2	0	46	1.13
1395547--1395591	15	3.1	15	76	23	51	40	2	0	57	1.11
1395457--1395615	85	1.9	85	84	2	212	35	8	3	52	1.49
1395462--1395644	85	2.2	84	81	4	199	34	10	3	50	1.56
1398805--1398837	15	2.1	16	88	5	50	51	15	24	9	1.72
1403024--1403132	51	2.1	51	88	3	157	39	6	11	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420516--1420564	17	2.8	18	84	9	57	79	4	14	2	0.97
1420478--1420654	5	34.4	5	70	19	55	74	2	18	5	1.13
1420478--1420564	20	4.7	18	73	16	61	77	4	17	1	1.01
1420611--1420655	19	2.3	20	85	11	58	77	0	15	6	0.96
1420585--1420654	27	2.6	27	78	15	72	75	0	15	8	1.03
1422780--1423173	102	3.9	102	88	4	562	32	19	11	37	1.87
1422744--1423159	203	2.0	203	92	0	690	32	19	12	36	1.89
1423488--1423569	32	2.6	32	92	0	137	45	15	15	23	1.85
1423697--1423759	29	2.2	29	100	0	126	49	7	6	36	1.58
1430147--1430201	13	4.2	13	88	0	74	29	20	16	34	1.94
1430173--1430336	85	2.0	84	85	2	222	29	21	19	29	1.98
1430355--1430380	2	13.0	2	100	0	52	50	0	0	50	1.00
1434039--1434535	59	8.4	57	77	10	330	36	10	22	29	1.88
1434039--1434535	119	4.2	119	76	11	378	36	10	22	29	1.88
1434040--1434376	118	2.8	119	82	7	384	36	10	23	29	1.88
1434290--1434464	60	2.9	60	88	4	255	34	12	22	30	1.91
1434618--1435186	44	13.0	44	95	1	1002	39	6	20	33	1.78
1435189--1435232	23	2.0	23	81	4	54	40	0	15	43	1.47
1435596--1435635	21	1.9	21	94	0	71	27	17	27	27	1.98
1443815--1443863	23	2.1	23	88	0	71	59	14	14	12	1.62
1447036--1447101	3	21.7	3	73	14	55	34	0	1	63	1.04
1448515--1448576	2	31.0	2	100	0	124	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)
1449406--1449497	43	2.1	43	100	0	184	45	3	17	33	1.65
1450998--1451033	6	6.0	6	93	0	54	16	22	16	44	1.86
1450999--1451034	18	2.0	18	94	0	63	16	25	16	41	1.89
1454926--1455422	59	8.4	57	77	10	330	36	10	22	29	1.88
1454926--1455422	119	4.2	119	76	11	378	36	10	22	29	1.88
1454927--1455263	118	2.8	119	82	7	384	36	10	23	29	1.88
1455177--1455351	60	2.9	60	88	4	255	34	12	22	30	1.91
1455505--1456073	44	13.0	44	95	1	1002	39	6	20	33	1.78
1456076--1456119	23	2.0	23	81	4	54	40	0	15	43	1.47
1456482--1456521	21	1.9	21	94	0	71	27	17	27	27	1.98

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