genome.fa.s1836.2.7.7.80.10.50.1000.7.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: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2428596

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

This is table  7  of  12  ( 1328 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)
1315494--1315537	22	2.0	22	90	0	70	22	45	13	18	1.84
1315800--1315858	20	3.0	20	87	0	73	15	18	22	44	1.87
1315995--1316049	25	2.2	24	78	15	58	20	9	18	52	1.71
1317175--1317222	18	2.7	18	93	0	87	27	45	12	14	1.81
1318683--1318721	19	2.1	19	100	0	78	43	15	0	41	1.46
1327376--1327421	20	2.3	20	88	0	65	36	26	19	17	1.94
1327415--1327504	19	5.3	18	70	24	79	46	22	18	12	1.82
1327431--1327489	14	3.9	14	76	20	64	49	23	16	10	1.77
1327415--1327504	33	2.7	33	98	0	171	46	22	18	12	1.82
1327502--1327551	20	2.5	20	93	0	82	14	26	28	32	1.94
1327522--1327577	20	2.8	20	88	0	76	23	16	28	32	1.96
1327926--1327993	21	3.3	20	74	8	66	25	39	16	19	1.91
1327917--1328005	40	2.2	42	87	4	137	22	40	15	21	1.91
1329415--1329453	14	2.8	14	84	0	51	35	0	17	46	1.49
1329549--1329587	20	2.0	20	94	0	69	46	30	10	12	1.75
1329593--1329661	19	3.7	19	92	1	113	44	17	21	15	1.86
1329680--1329751	20	3.6	20	88	0	108	16	20	22	40	1.91
1330306--1330450	20	7.2	20	82	4	148	24	18	26	30	1.98
1330301--1330455	40	3.8	40	79	5	177	25	18	25	30	1.98
1331914--1332553	165	3.9	164	82	2	685	25	20	22	32	1.98
1331919--1332659	165	4.5	163	81	4	672	25	20	22	31	1.98
1332092--1332842	409	1.8	411	86	1	1085	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331980--1332747	329	2.3	327	79	5	767	25	19	23	31	1.98
1331919--1332826	245	3.7	243	80	4	779	25	19	23	31	1.98
1332509--1332842	165	2.0	164	85	1	454	25	20	23	29	1.99
1333572--1333681	57	1.9	56	83	7	141	29	19	21	30	1.97
1334226--1334252	2	13.5	2	100	0	54	51	0	0	48	1.00
1336395--1336474	21	3.6	22	76	5	81	26	25	23	25	2.00
1336422--1336493	21	3.5	20	72	12	56	25	20	25	29	1.99
1336403--1336493	42	2.1	44	84	8	116	25	21	25	27	2.00
1341686--1341780	20	4.7	20	83	7	102	31	22	25	21	1.98
1341678--1341742	21	3.1	21	78	12	80	26	26	26	21	2.00
1341678--1341780	41	2.5	41	87	1	136	30	24	24	21	1.99
1341815--1341857	22	1.9	23	90	4	70	20	20	32	25	1.97
1341958--1342015	30	2.0	29	83	10	73	44	17	5	32	1.70
1341958--1342016	29	2.0	30	86	6	84	44	16	5	33	1.70
1342050--1342252	84	2.4	84	81	0	235	26	19	22	32	1.97
1343441--1343626	95	2.0	94	89	5	286	31	16	18	33	1.93
1346013--1346066	24	2.2	24	96	0	99	22	12	27	37	1.91
1346496--1346630	64	2.1	64	95	0	243	21	10	10	57	1.61
1357494--1357535	19	2.2	20	86	4	59	40	16	11	30	1.85
1357876--1357918	20	2.2	20	86	0	59	30	13	20	34	1.92
1368036--1368089	27	2.0	27	96	0	99	27	7	20	44	1.78
1372050--1374896	221	13.0	221	96	1	5235	38	20	13	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375592--1375678	19	4.7	18	81	8	77	34	11	12	41	1.79
1375589--1375678	18	4.9	18	84	8	101	33	11	12	43	1.77
1375589--1375678	37	2.4	37	83	7	103	33	11	12	43	1.77
1376830--1376913	24	3.6	25	69	25	74	36	27	2	33	1.70
1390386--1390416	16	1.9	16	93	0	53	51	12	6	29	1.65
1401564--1401619	23	2.5	22	85	2	67	19	25	25	30	1.98
1405106--1405137	2	17.0	2	87	12	50	50	0	0	50	1.00
1405696--1405772	38	2.0	38	97	0	145	45	2	9	42	1.49
1407907--1407979	38	1.9	38	88	5	112	38	19	13	28	1.90
1412524--1412598	38	2.0	37	85	10	100	46	1	4	48	1.29
1415404--1415669	87	3.1	86	83	3	345	35	10	7	45	1.68
1416759--1416820	29	2.1	29	93	0	106	51	0	4	43	1.23
1421710--1421775	30	2.2	31	88	2	98	43	0	3	53	1.16
1422583--1422613	16	1.9	16	100	0	62	48	12	6	32	1.67
1423174--1423206	16	2.1	16	94	5	59	45	0	0	54	0.99
1437555--1437684	5	26.0	5	100	0	260	40	0	0	60	0.97
1439263--1439296	2	17.0	2	100	0	68	50	0	0	50	1.00
1445428--1445817	184	2.1	186	91	4	630	42	3	8	45	1.52
1446275--1446331	30	1.9	30	89	7	89	36	19	17	26	1.94
1446272--1446362	31	3.0	30	79	7	94	38	17	15	28	1.90
1448320--1448345	3	8.7	3	100	0	52	65	0	0	34	0.93
1450195--1450231	2	18.5	2	100	0	74	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)
1450658--1450743	31	2.8	31	83	0	91	38	17	16	27	1.91
1456540--1456578	20	2.0	20	89	0	60	33	15	20	30	1.94
1463918--1464474	144	3.9	144	88	3	763	14	30	14	41	1.85
1465701--1465793	42	2.2	43	88	1	143	43	20	22	13	1.87
1469549--1469579	14	2.2	14	94	0	53	19	12	25	41	1.87
1469616--1469660	3	14.7	3	81	4	54	40	2	0	57	1.11
1469614--1469666	9	5.9	9	88	4	72	41	1	0	56	1.10
1470071--1470109	9	4.2	9	80	6	51	46	35	2	15	1.60
1471106--1471197	30	3.1	29	80	6	87	20	8	7	63	1.48
1471634--1471673	16	2.4	18	76	20	50	35	5	2	57	1.34
1472654--1472726	32	2.3	32	83	4	94	20	10	8	60	1.56
1475717--1475935	101	2.2	101	91	0	348	34	17	19	29	1.94
1477050--1477359	130	2.4	128	80	8	339	27	25	18	28	1.98
1481202--1481235	2	17.0	2	100	0	68	50	0	0	50	1.00
1483161--1483252	37	2.5	37	90	1	148	33	7	19	39	1.80
1489290--1489344	22	2.3	24	90	9	87	40	9	9	41	1.68
1495934--1495974	22	1.9	21	85	5	55	36	24	0	39	1.56
1504764--1504804	20	2.0	20	85	4	55	48	12	7	31	1.68
1507021--1507065	7	6.4	7	90	7	56	11	11	0	77	0.99
1508640--1508674	17	2.1	17	89	10	54	48	2	20	28	1.63
1519289--1519326	17	2.2	17	100	0	76	23	5	36	34	1.78
1520545--1520582	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522157--1522755	182	3.3	180	88	1	822	40	13	17	28	1.88
1524723--1524777	24	2.4	23	80	11	69	43	0	5	50	1.25
1525144--1525187	21	2.1	21	91	0	70	38	13	34	13	1.84
1525221--1525287	33	2.0	33	91	5	109	28	0	46	25	1.53
1525392--1525423	14	2.3	14	94	0	55	40	0	43	15	1.47
1525473--1525511	18	2.2	18	95	0	69	61	2	35	0	1.10
1527065--1527113	19	2.6	19	96	0	89	32	2	10	55	1.45
1527475--1528799	200	6.7	200	79	8	1284	36	14	16	32	1.89
1527475--1528799	399	3.4	390	79	10	1414	36	14	16	32	1.89
1528082--1528427	179	1.9	179	84	5	459	35	14	15	34	1.89
1527885--1528649	379	2.0	373	85	5	988	35	14	17	32	1.90
1528499--1528537	20	2.0	20	84	0	51	41	5	12	41	1.65
1527699--1528752	578	1.8	578	83	4	1428	36	14	16	32	1.89
1528262--1528799	199	2.7	198	79	7	568	37	13	15	33	1.87
1530213--1530277	6	10.8	6	81	0	58	41	3	27	27	1.71
1530216--1530268	18	2.9	18	91	0	79	43	3	28	24	1.71
1531256--1531318	11	5.5	11	81	10	81	36	7	9	46	1.66
1531258--1531332	36	2.1	36	100	0	132	36	5	10	48	1.61
1531590--1531628	15	2.6	15	87	0	51	38	17	7	35	1.79
1531629--1532795	200	5.8	199	82	2	1315	39	13	15	31	1.87
1536220--1537144	201	4.6	198	80	7	996	40	13	14	32	1.85
1537139--1537301	87	1.9	87	97	0	308	32	14	11	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537223--1537267	23	2.0	23	86	0	63	40	17	6	35	1.76
1542332--1542408	33	2.3	34	97	2	147	38	0	0	61	0.96
1542324--1542419	34	2.6	40	81	16	102	39	0	0	60	0.97
1542464--1543374	461	2.0	460	95	0	1644	25	15	26	32	1.95
1544492--1544538	23	2.0	23	100	0	94	31	12	21	34	1.91
1545269--1545309	18	2.3	19	79	12	50	48	12	0	39	1.41
1545313--1545404	30	3.1	30	80	0	103	41	4	2	52	1.33
1545374--1545778	184	2.2	181	85	4	532	38	6	2	51	1.44
1545366--1545720	93	3.8	92	76	10	346	40	6	2	50	1.40
1545673--1545804	30	4.6	28	72	12	108	34	5	3	56	1.40

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