genome.fa.s8504.2.7.7.80.10.50.1000.6.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: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2056749

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

This is table  6  of  10  ( 1190 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)
1194171--1194295	64	1.9	65	85	7	175	28	23	18	29	1.98
1202330--1202364	2	17.5	2	100	0	70	48	0	0	51	1.00
1202826--1203034	65	3.2	64	80	13	221	30	21	18	29	1.97
1206356--1206411	21	2.7	20	78	10	58	39	19	16	25	1.91
1207793--1207872	3	26.7	3	84	5	108	70	0	1	28	0.96
1209440--1209536	23	4.2	24	84	9	87	7	19	0	73	1.06
1209463--1209592	8	17.4	8	79	13	120	10	16	0	73	1.10
1212698--1213361	169	3.8	172	92	4	1058	29	22	10	37	1.87
1213197--1213221	2	12.5	2	100	0	50	52	0	0	48	1.00
1212698--1213361	342	1.9	343	91	5	1095	29	22	10	37	1.87
1214984--1215012	15	1.9	15	100	0	58	24	13	13	48	1.79
1214773--1215197	218	2.0	217	98	0	823	32	16	19	31	1.94
1215675--1215723	22	2.2	22	100	0	98	26	28	20	24	1.99
1219826--1219861	18	2.0	18	100	0	72	38	22	16	22	1.93
1223013--1223052	20	2.0	21	90	5	64	57	0	0	42	0.98
1223090--1223126	19	1.9	19	100	0	74	59	0	21	18	1.38
1223135--1223166	16	2.0	16	93	0	55	59	0	12	28	1.34
1229767--1229791	13	1.9	13	100	0	50	80	4	16	0	0.87
1229799--1229867	27	2.6	26	82	13	79	72	1	20	5	1.13
1229821--1229862	17	2.5	17	85	11	59	76	0	19	4	0.96
1229780--1229852	38	1.9	38	83	10	96	73	1	17	6	1.11
1230233--1230261	13	2.2	13	100	0	58	34	0	27	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232565--1232689	47	2.8	45	87	9	175	39	8	22	30	1.83
1236383--1236791	201	2.0	202	90	2	644	25	19	6	48	1.72
1236828--1236886	23	2.6	23	79	12	68	25	3	3	67	1.21
1237997--1238090	12	7.8	12	76	4	91	51	19	14	14	1.77
1237995--1238127	24	5.5	24	84	1	151	50	18	14	17	1.78
1237997--1238090	36	2.6	36	78	9	111	51	19	14	14	1.77
1237995--1238086	5	15.3	6	68	27	54	52	18	14	15	1.75
1240608--1240642	13	2.7	13	100	0	70	17	22	42	17	1.88
1240621--1240666	18	2.6	18	85	0	65	17	19	45	17	1.85
1242735--1242804	12	5.8	12	76	6	70	51	18	14	15	1.77
1242735--1242841	24	4.5	24	79	2	99	50	17	14	17	1.78
1242731--1242841	48	2.3	48	87	3	152	50	17	13	18	1.78
1245226--1245259	15	2.1	16	89	10	52	23	23	35	17	1.95
1245249--1245280	13	2.5	13	94	0	55	15	25	43	15	1.86
1245216--1245262	10	5.5	8	85	14	51	23	23	34	19	1.97
1245272--1245312	5	7.6	5	84	15	55	7	17	56	19	1.64
1245257--1245303	18	2.6	18	89	0	76	12	21	48	17	1.79
1248074--1248127	4	13.8	4	96	3	101	75	0	0	24	0.80
1260805--1260872	19	3.4	21	79	13	65	29	22	19	29	1.98
1260822--1260872	22	2.5	20	82	14	61	31	21	17	29	1.96
1263829--1263889	22	2.8	22	67	18	54	39	26	11	22	1.88
1267138--1267166	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268688--1268721	13	2.6	13	86	13	52	50	0	0	50	1.00
1273405--1273438	12	2.9	11	91	8	50	52	11	2	32	1.53
1274221--1274291	23	3.2	23	82	5	85	50	12	21	15	1.77
1274232--1274305	20	3.5	20	87	7	94	50	13	17	18	1.79
1276299--1276350	16	3.2	16	86	5	61	36	19	5	38	1.76
1279262--1279313	16	3.1	16	81	8	59	80	1	3	13	0.93
1279257--1279330	22	3.3	21	74	14	60	77	2	4	16	1.04
1279267--1279313	17	2.8	17	87	6	69	80	0	4	14	0.85
1279279--1279330	26	1.9	28	84	7	72	76	0	3	19	0.93
1281591--1281789	43	4.7	42	78	5	166	35	14	21	28	1.93
1282356--1282419	3	21.0	3	84	9	85	32	3	0	64	1.10
1283215--1283250	14	2.6	14	95	0	63	47	5	25	22	1.73
1283910--1284299	148	2.7	144	80	9	343	38	6	8	45	1.61
1284299--1284332	17	2.1	17	88	5	52	55	0	0	44	0.99
1285512--1285550	9	4.3	9	86	0	60	10	2	0	87	0.65
1285519--1285548	15	1.9	16	93	6	53	10	3	0	86	0.67
1286365--1286397	7	5.0	7	89	10	52	15	15	12	57	1.65
1286365--1286398	13	2.6	13	90	0	59	14	14	14	55	1.69
1293112--1293384	36	7.5	36	66	11	153	31	18	12	37	1.88
1293112--1293366	37	7.0	37	69	2	192	32	18	11	38	1.87
1293112--1293408	73	4.1	73	92	0	477	32	17	12	37	1.88
1293423--1293873	122	3.7	122	89	2	719	39	15	19	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293786--1294149	139	2.6	135	86	5	480	39	15	18	26	1.90
1294349--1294433	3	28.7	3	80	15	70	36	2	0	61	1.09
1294352--1294432	17	5.1	16	69	13	69	35	2	0	61	1.09
1294349--1294400	23	2.3	22	87	12	79	28	3	0	67	1.08
1301898--1301961	21	3.0	21	81	4	65	23	35	25	15	1.94
1301900--1301980	21	3.8	21	74	18	60	23	37	24	14	1.93
1304285--1304314	13	2.2	14	94	5	53	46	13	0	40	1.43
1309015--1309076	21	2.8	22	82	4	81	32	30	22	14	1.94
1314182--1314234	6	8.8	6	97	0	88	11	50	0	37	1.38
1316094--1316139	23	2.0	24	82	4	58	32	23	23	19	1.97
1316130--1316182	21	2.5	22	84	9	58	35	30	18	15	1.92
1316138--1316182	21	2.1	22	91	4	74	35	31	17	15	1.92
1317873--1317993	44	2.8	44	81	3	129	38	15	14	30	1.88
1317924--1318064	41	3.4	42	77	6	126	39	19	15	25	1.91
1317966--1318106	41	3.5	40	80	5	131	36	21	17	24	1.94
1317992--1318126	41	3.3	41	77	6	139	31	20	20	28	1.97
1318475--1318513	14	2.8	14	80	0	51	53	5	5	35	1.45
1321624--1322591	484	2.0	484	98	0	1882	32	18	16	33	1.92
1328249--1328317	34	2.0	35	94	2	122	31	11	11	44	1.77
1329996--1330053	27	2.2	27	87	3	82	41	0	0	58	0.98
1334414--1334456	3	14.7	3	85	4	61	2	32	0	65	1.06
1334414--1334454	20	2.0	20	90	0	64	2	31	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336229--1336280	14	3.7	14	82	14	63	38	0	3	57	1.17
1336228--1336279	15	3.7	14	78	16	54	40	0	3	55	1.18
1336315--1336381	19	3.6	18	70	20	57	53	0	2	43	1.16
1336293--1336378	37	2.4	36	81	11	90	56	1	3	38	1.24
1342387--1342472	43	2.0	43	95	0	154	16	2	36	45	1.60
1343805--1343905	45	2.2	45	82	5	114	31	7	7	52	1.59
1345470--1345509	14	2.9	14	84	0	53	42	2	5	50	1.37
1345436--1345495	22	2.7	22	87	5	77	40	1	6	51	1.38
1346002--1346161	84	1.9	84	93	0	275	40	20	11	28	1.87
1346142--1346181	21	1.9	21	90	10	64	52	27	0	20	1.46
1346897--1346959	27	2.5	24	78	14	72	39	7	3	49	1.48
1346897--1347090	11	16.3	11	69	22	83	43	9	3	43	1.52
1356434--1356623	94	2.0	94	100	0	380	23	13	21	41	1.89
1367518--1367827	155	2.0	155	94	0	548	33	14	24	26	1.95
1369971--1370019	15	3.3	15	91	2	64	44	40	0	14	1.45
1369972--1370019	7	6.6	7	83	9	60	45	39	0	14	1.45
1369973--1370031	22	2.6	22	78	7	66	44	40	1	13	1.54
1374508--1374532	11	2.3	11	100	0	50	84	0	0	16	0.63
1384824--1384891	35	1.9	35	87	0	100	29	25	17	27	1.97
1385617--1385655	14	2.7	15	88	7	55	66	0	33	0	0.92
1392116--1392245	61	2.2	59	81	9	149	30	25	5	38	1.78
1392116--1392248	60	2.2	58	80	10	153	32	24	5	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393719--1393790	3	23.7	3	81	13	85	31	2	0	65	1.07
1393762--1393803	19	2.2	19	83	8	50	50	0	0	50	1.00
1393756--1393803	22	2.2	22	85	7	62	47	0	0	52	1.00
1394097--1394177	35	2.3	35	93	2	135	25	38	23	12	1.90
1394598--1394639	20	2.1	20	100	0	84	21	30	33	14	1.93
1400402--1400456	22	2.5	22	90	0	83	34	14	10	40	1.81
1401151--1401293	76	1.9	74	86	2	205	25	20	20	32	1.97
1401227--1401316	45	2.0	45	91	4	146	25	22	18	33	1.97
1401469--1401531	3	20.7	3	84	9	83	30	1	0	68	0.99
1402618--1402644	13	2.1	13	100	0	54	22	0	7	70	1.12

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