genome.fa.s8243.2.7.7.80.10.50.1000.8.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  8  of  49  ( 5786 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)
1212052--1212087	18	2.0	18	94	0	63	33	5	19	41	1.75
1217082--1217151	31	2.3	31	80	9	81	28	20	12	38	1.89
1219809--1219852	17	2.5	17	81	7	52	40	4	6	47	1.50
1233625--1233693	6	11.5	6	89	10	106	30	52	17	0	1.45
1234198--1234335	6	23.5	6	93	5	230	0	16	52	31	1.44
1234198--1234335	41	3.4	41	92	4	226	0	16	52	31	1.44
1236050--1236113	24	2.7	24	88	7	96	48	12	15	23	1.79
1236299--1236370	28	2.5	28	86	6	99	30	2	1	65	1.15
1236299--1236723	31	14.6	28	67	16	122	37	6	2	53	1.40
1236289--1236569	60	4.8	57	72	12	196	38	5	1	54	1.31
1236651--1236726	29	2.7	29	80	8	86	31	10	2	55	1.48
1236809--1236906	29	3.3	29	84	2	124	52	1	5	41	1.30
1236899--1236932	2	17.0	2	100	0	68	50	0	0	50	1.00
1236898--1236966	10	7.2	10	79	15	56	56	0	0	43	0.99
1236996--1237063	29	2.4	28	79	13	77	50	0	1	48	1.10
1237089--1237140	2	26.0	2	100	0	104	50	0	0	50	1.00
1237964--1238035	21	3.4	21	86	7	101	31	16	20	30	1.95
1239853--1239930	30	2.6	30	95	2	138	61	0	5	33	1.18
1240179--1240217	18	2.1	19	85	9	53	43	0	0	56	0.99
1240429--1240461	2	16.5	2	100	0	66	48	0	0	51	1.00
1247935--1247974	20	2.0	20	95	0	71	52	20	7	20	1.70
1248185--1248237	22	2.4	22	93	0	97	28	22	7	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253633--1253681	24	2.0	24	100	0	98	20	0	8	71	1.11
1255932--1255962	16	1.9	16	100	0	62	25	25	25	22	2.00
1255983--1256022	21	1.9	21	84	0	53	20	20	27	32	1.97
1256550--1256614	24	2.8	23	86	6	78	30	27	26	15	1.96
1264013--1264047	15	2.3	15	100	0	70	20	11	34	34	1.88
1272635--1272677	20	2.2	20	91	0	68	34	20	11	32	1.89
1275806--1275886	30	2.8	28	79	5	90	51	1	7	39	1.38
1278457--1278544	21	4.2	21	95	0	140	17	28	18	36	1.93
1279427--1279480	24	2.2	24	90	0	81	22	18	18	40	1.91
1281990--1282044	19	2.8	19	83	2	65	38	21	21	18	1.94
1282017--1282110	33	2.8	33	93	0	152	44	19	23	12	1.85
1281997--1282075	19	4.4	19	75	16	78	43	20	22	13	1.87
1282273--1282309	14	2.6	14	91	0	65	45	21	0	32	1.52
1284204--1284258	19	2.8	20	88	5	85	47	20	21	10	1.80
1284306--1284368	20	3.2	20	88	4	101	11	17	17	53	1.71
1284460--1284835	94	4.1	94	91	2	584	46	18	12	21	1.82
1286519--1286606	19	4.8	19	75	14	87	44	20	23	11	1.84
1286517--1286637	33	3.5	33	82	6	134	46	21	22	9	1.80
1286639--1286677	20	2.0	20	89	0	60	12	10	17	58	1.61
1287217--1287311	20	4.7	20	78	2	118	18	18	22	40	1.92
1287217--1287311	41	2.3	40	87	3	136	18	18	22	40	1.92
1287294--1287375	41	2.0	41	92	2	139	37	19	21	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287308--1287394	21	4.2	21	83	2	113	39	18	25	17	1.92
1287301--1287394	41	2.3	41	90	1	125	37	19	24	19	1.94
1292032--1292139	47	2.3	48	83	1	130	34	15	15	34	1.90
1295963--1296030	23	3.0	23	88	0	91	19	26	26	27	1.99
1301179--1301238	23	2.6	23	86	0	75	21	25	25	28	1.99
1301269--1301301	17	2.0	17	88	5	50	33	30	6	30	1.82
1302019--1302071	21	2.5	21	81	0	70	35	11	7	45	1.69
1302080--1302212	45	2.9	45	86	5	178	41	9	12	36	1.75
1303330--1303475	65	2.3	64	83	8	172	32	17	21	29	1.96
1303825--1303858	12	2.7	13	86	9	52	41	5	8	44	1.60
1304151--1304219	31	2.2	32	89	7	106	56	24	0	18	1.42
1305614--1305643	13	2.3	13	94	0	51	50	6	13	30	1.67
1306112--1306229	44	2.7	44	83	6	159	27	19	22	30	1.98
1315088--1315357	131	2.1	130	90	1	416	45	17	13	23	1.84
1330835--1330874	21	1.9	21	84	0	53	17	25	27	30	1.97
1345280--1345320	2	20.5	2	100	0	82	51	0	0	48	1.00
1350039--1350072	16	2.1	16	88	0	50	32	14	29	23	1.94
1351091--1351128	9	4.2	9	80	12	51	57	7	2	31	1.41
1352314--1352371	25	2.2	25	87	12	80	74	3	0	22	0.97
1353329--1353367	20	2.1	19	85	9	53	23	33	20	23	1.97
1356756--1356799	23	2.0	22	81	4	52	40	2	6	50	1.42
1357174--1357230	20	2.8	21	81	5	71	21	24	31	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362063--1362101	19	2.1	19	90	9	62	38	5	2	53	1.37
1369413--1369498	19	4.3	19	75	17	68	24	26	29	19	1.99
1369415--1369498	20	4.1	20	75	17	75	23	27	28	20	1.99
1371900--1371924	13	1.9	13	100	0	50	44	8	8	40	1.63
1373669--1373719	14	3.5	14	80	17	59	68	0	0	31	0.90
1373689--1373744	3	19.3	3	79	17	57	64	0	0	35	0.94
1373685--1373741	7	8.6	7	74	16	50	64	0	0	35	0.93
1373685--1373751	28	2.5	26	79	13	75	64	1	0	34	1.03
1373689--1373744	23	2.4	24	82	8	71	64	0	0	35	0.94
1373794--1374136	38	9.0	36	75	16	257	45	6	1	46	1.37
1373794--1374136	37	9.0	38	78	15	300	45	6	1	46	1.37
1373914--1373945	2	16.5	2	93	6	57	46	0	0	53	1.00
1373876--1373981	50	2.2	48	91	5	169	45	3	1	49	1.31
1374009--1374062	28	1.9	28	81	7	65	42	7	0	50	1.30
1373927--1374136	75	2.8	74	87	5	309	45	6	1	46	1.39
1374153--1374184	4	7.8	4	96	3	55	71	0	0	28	0.86
1373949--1374176	75	3.1	74	80	7	246	47	6	2	43	1.41
1374951--1375021	31	2.3	31	90	0	115	39	15	7	38	1.75
1375814--1375887	10	7.6	10	67	27	52	56	20	10	12	1.65
1375817--1375881	16	4.1	16	87	0	94	56	21	10	10	1.63
1376960--1376991	14	2.3	14	100	0	64	59	15	12	12	1.61
1377043--1377144	40	2.5	40	98	0	195	30	16	11	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377338--1377365	14	2.0	14	100	0	56	35	14	7	42	1.73
1377616--1377711	48	2.0	48	97	0	183	46	6	15	31	1.71
1379304--1379364	31	1.9	32	93	3	106	39	19	0	40	1.52
1382465--1382498	16	2.1	16	88	0	50	44	8	0	47	1.34
1385193--1385250	21	2.8	21	72	12	57	46	3	1	48	1.29
1387109--1387162	28	2.0	27	92	3	90	57	5	20	16	1.59
1389546--1389586	19	2.2	19	100	0	82	41	9	24	24	1.85
1392578--1392622	21	2.1	21	83	0	54	53	6	8	31	1.58
1393020--1393071	24	2.1	24	85	3	68	36	0	3	59	1.16
1395305--1395349	9	4.8	9	83	8	54	15	24	31	28	1.96
1395305--1395349	19	2.4	18	85	7	54	15	24	31	28	1.96
1395345--1395372	14	2.0	14	100	0	56	21	50	21	7	1.72
1395346--1395394	22	2.4	20	90	10	73	20	48	22	8	1.75
1395343--1395402	17	3.4	17	82	8	84	18	43	23	15	1.87
1395396--1395422	7	3.9	7	100	0	54	14	25	29	29	1.95
1396289--1396361	31	2.3	32	83	2	94	15	26	32	26	1.95
1402632--1402678	14	3.1	14	83	16	67	19	44	23	12	1.85
1402630--1402684	17	3.4	17	87	12	89	18	41	23	16	1.89
1402678--1402711	7	4.9	7	100	0	68	14	26	29	29	1.95
1403584--1403656	31	2.3	32	83	2	94	15	26	32	26	1.95
1404273--1404308	17	2.1	17	90	10	56	61	0	0	38	0.96
1404766--1404839	36	2.0	37	82	12	91	52	2	0	44	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411836--1411875	19	2.0	19	85	9	53	47	0	10	42	1.37
1411848--1411890	19	2.2	20	83	4	52	53	2	9	34	1.46
1413294--1413334	20	2.0	20	100	0	82	46	14	4	34	1.66
1413803--1413841	15	2.4	16	83	12	53	64	2	0	33	1.08
1414174--1414933	21	36.6	21	71	19	404	35	24	19	19	1.95
1414174--1414918	42	17.9	42	89	4	1100	35	24	19	19	1.95
1421327--1421433	52	2.0	53	87	3	153	41	14	23	20	1.90
1422727--1422780	23	2.3	22	81	15	56	48	9	0	42	1.35
1423180--1423314	20	6.7	20	83	1	180	37	20	20	22	1.95
1423161--1423314	40	3.8	40	86	6	172	35	21	20	23	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49