genome.fa.s9611.2.7.7.80.10.50.1000.5.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  5  of  27  ( 3214 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)
1264207--1264295	21	4.2	21	92	0	151	29	26	22	21	1.99
1264204--1264295	42	2.2	42	98	0	175	30	27	21	20	1.98
1264283--1264334	20	2.6	20	100	0	104	38	17	21	23	1.93
1265041--1265102	6	10.5	6	98	1	117	0	16	51	32	1.44
1265187--1265259	20	3.6	20	75	17	87	35	21	20	21	1.96
1265762--1265811	25	2.0	26	84	4	66	50	0	4	46	1.20
1269413--1269440	1	28.0	1	100	0	56	0	100	0	0	0.00
1270230--1270258	14	2.0	15	93	6	51	55	27	13	3	1.55
1271277--1271501	111	2.0	112	93	0	389	21	8	22	47	1.78
1277857--1277999	71	2.0	71	94	0	250	32	20	17	29	1.96
1284251--1284279	12	2.4	12	100	0	58	13	41	0	44	1.44
1292148--1292254	33	3.2	33	93	0	187	36	21	26	15	1.94
1293141--1293216	36	2.1	36	85	7	100	47	1	3	47	1.29
1293362--1293399	20	1.9	20	88	0	58	21	26	10	42	1.85
1297709--1297780	30	2.4	30	77	11	76	38	23	26	11	1.88
1299118--1299153	16	2.2	16	100	0	72	27	25	5	41	1.77
1299883--1299931	24	2.0	24	84	7	64	46	2	4	46	1.33
1300011--1300036	2	13.0	2	100	0	52	50	0	0	50	1.00
1300515--1300555	22	1.9	21	85	14	57	46	7	2	43	1.44
1300544--1300590	19	2.5	19	83	13	62	44	8	0	46	1.33
1300554--1300584	16	1.9	16	100	0	62	38	12	0	48	1.42
1302757--1302810	5	10.8	5	93	0	72	5	40	37	16	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302808--1302898	6	15.2	6	97	0	146	4	16	49	29	1.65
1303172--1303226	22	2.5	22	75	0	56	29	9	23	38	1.85
1308752--1308800	5	9.8	5	93	0	62	6	40	36	16	1.73
1308798--1308864	6	11.2	6	96	0	98	5	16	49	28	1.69
1309139--1309193	22	2.5	22	75	0	56	29	9	23	38	1.85
1310249--1310402	84	1.8	84	97	0	290	37	16	11	35	1.85
1313148--1313232	28	2.9	29	87	5	118	42	12	12	31	1.81
1316596--1316625	15	2.0	15	93	0	51	13	0	30	56	1.37
1317895--1317977	29	2.8	29	92	1	130	44	9	14	31	1.77
1318865--1319019	79	2.0	78	93	3	267	54	9	8	28	1.61
1324412--1324498	28	3.0	29	91	3	115	32	18	28	20	1.96
1324421--1324501	28	2.9	28	96	1	144	30	19	27	22	1.98
1324993--1325058	32	2.0	35	85	8	93	65	1	1	31	1.11
1327414--1327453	19	2.1	19	100	0	80	10	17	30	42	1.82
1327840--1327898	29	2.0	30	87	6	86	49	8	1	40	1.43
1327914--1327954	21	2.0	21	85	0	55	26	12	2	58	1.46
1330806--1330847	20	2.1	20	90	0	66	30	23	11	33	1.91
1332227--1332272	13	3.8	13	77	13	53	58	2	0	39	1.10
1333583--1333639	11	4.8	13	75	18	61	61	1	1	35	1.17
1333952--1333995	20	2.2	20	92	4	72	36	6	27	29	1.83
1334024--1334054	16	1.9	16	93	0	53	38	12	9	38	1.77
1334671--1334719	22	2.2	22	85	0	62	40	6	14	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343836--1343875	16	2.6	16	88	4	55	35	12	22	30	1.91
1343928--1343994	27	2.5	27	100	0	134	29	16	17	35	1.92
1347037--1347099	27	2.3	27	94	0	108	11	22	23	42	1.85
1352886--1353104	120	1.8	120	93	0	384	35	21	17	25	1.95
1357666--1357719	22	2.4	22	81	6	63	61	5	14	18	1.52
1357676--1357718	22	2.0	22	90	0	68	60	4	16	18	1.52
1359665--1359770	54	2.0	54	98	0	203	35	5	18	39	1.75
1361174--1361198	2	12.5	2	100	0	50	48	0	0	52	1.00
1362571--1362604	10	3.4	10	87	0	50	20	5	0	73	1.04
1372854--1373506	105	6.4	105	93	3	1018	33	27	18	21	1.96
1374981--1375024	2	22.5	2	95	4	81	47	0	0	52	1.00
1379293--1379363	24	3.0	24	80	0	70	49	15	12	22	1.78
1379298--1379375	24	3.2	24	74	3	68	48	15	12	23	1.79
1391679--1391727	19	2.5	20	80	9	57	42	0	8	48	1.32
1391840--1391887	22	2.2	22	82	13	64	58	0	2	39	1.10
1392265--1392296	3	10.7	3	100	0	64	34	0	0	65	0.93
1393526--1393574	23	2.1	23	96	0	89	44	8	16	30	1.76
1395462--1395505	21	2.1	21	83	8	54	34	9	2	54	1.44
1398299--1398359	32	1.9	31	83	9	79	21	13	29	36	1.91
1398941--1398989	20	2.7	18	79	20	57	44	2	0	53	1.12
1401231--1401286	23	2.5	24	77	11	64	58	1	3	35	1.26
1412569--1412616	21	2.3	21	100	0	96	58	10	14	16	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421077--1421114	20	1.9	20	88	0	58	44	18	0	36	1.50
1421183--1421209	11	2.5	11	100	0	54	40	7	18	33	1.78
1421946--1421996	19	2.6	20	90	3	77	43	23	17	15	1.88
1421946--1422243	20	14.6	20	75	10	147	38	19	22	19	1.93
1422050--1422241	40	4.7	40	81	5	213	36	17	25	21	1.94
1422050--1422233	83	2.2	83	90	0	278	35	16	25	21	1.95
1422333--1422393	5	12.2	5	98	0	77	31	49	19	0	1.49
1422825--1422878	20	2.7	20	94	5	92	9	18	20	51	1.73
1422865--1422915	19	2.6	20	90	3	77	15	17	23	43	1.88
1424065--1424131	31	2.2	31	86	0	89	44	7	8	38	1.64
1424970--1425029	31	1.9	31	89	0	93	45	10	8	36	1.68
1425840--1425917	31	2.5	31	82	2	102	43	11	8	35	1.72
1423733--1426017	900	2.6	866	80	9	2893	39	15	14	30	1.87
1428646--1428679	5	6.8	5	100	0	68	58	41	0	0	0.98
1430608--1430640	16	2.0	17	88	5	50	39	3	0	57	1.14
1430655--1430686	15	2.0	17	88	11	50	31	12	6	50	1.65
1450689--1450757	29	2.3	30	78	9	79	37	14	5	42	1.70
1455240--1455592	192	1.8	192	84	3	483	25	26	17	30	1.97
1456562--1457219	351	1.9	352	98	0	1282	38	15	13	32	1.86
1457050--1457669	315	2.0	306	94	2	1087	42	11	16	29	1.83
1464112--1464149	18	2.1	18	95	0	67	81	0	0	18	0.69
1481881--1481909	3	9.7	3	100	0	58	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488721--1488784	32	2.0	33	84	3	85	18	15	25	40	1.90
1488792--1488837	22	2.1	22	88	8	67	10	8	30	50	1.68
1491295--1491328	16	2.1	16	88	0	50	50	0	2	47	1.16
1491370--1491403	16	2.0	18	88	11	54	26	2	5	64	1.30
1491874--1492121	130	1.9	130	94	0	433	36	12	14	36	1.85
1492518--1492591	35	2.1	35	92	0	121	35	1	22	40	1.63
1493998--1494063	30	2.2	30	97	0	123	27	7	6	59	1.49
1495801--1496690	449	2.0	448	98	0	1717	40	12	10	36	1.77
1497459--1497496	19	2.0	19	100	0	76	36	15	10	36	1.82
1506147--1506494	158	2.2	159	84	1	448	27	17	5	49	1.68
1514601--1514662	32	1.9	33	87	9	92	43	0	0	56	0.99
1514714--1514772	21	2.8	21	82	7	66	22	3	3	71	1.16
1514714--1514772	10	5.7	10	80	7	64	22	3	3	71	1.16
1528100--1528130	2	15.5	2	100	0	62	48	0	0	51	1.00
1530246--1530295	25	2.0	25	96	0	91	26	12	12	50	1.74
1536067--1536105	20	2.0	20	100	0	78	20	15	33	30	1.94
1539211--1539272	26	2.5	25	80	14	67	40	3	1	54	1.26
1543090--1543139	21	2.3	23	86	10	70	46	0	0	54	1.00
1543102--1543147	10	4.5	10	78	21	51	41	0	0	58	0.98
1543073--1543135	23	2.6	25	78	19	71	50	0	0	49	1.00
1543090--1543145	22	2.6	22	86	8	71	46	0	0	53	1.00
1543087--1543180	32	2.9	31	77	17	93	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)
1543143--1543193	23	2.2	23	86	6	68	52	0	1	45	1.12
1543098--1543225	53	2.4	54	75	20	135	49	0	0	50	1.06
1543290--1543334	23	2.0	23	86	0	63	51	2	4	42	1.34
1547057--1547090	16	2.2	16	89	5	52	52	5	0	41	1.25
1548152--1548229	16	4.9	15	76	13	59	46	0	0	53	1.00
1548154--1548230	33	2.5	33	80	16	92	45	0	0	54	0.99
1548172--1548222	17	3.0	17	82	5	59	45	0	0	54	0.99
1548172--1548229	16	3.6	16	81	4	71	46	0	0	53	1.00
1555610--1555766	78	2.0	78	98	0	305	35	22	12	29	1.90
1559919--1560261	170	2.0	173	98	1	665	28	20	19	31	1.97

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