genome.fa.s9587.2.7.7.80.10.50.1000.6.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  6  of  29  ( 3457 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)
1218181--1218217	16	2.3	16	90	9	58	78	10	8	2	1.06
1218541--1219132	296	2.0	296	99	0	1175	28	15	14	42	1.86
1230892--1230937	14	3.0	16	75	12	51	23	6	10	58	1.55
1232628--1232733	53	2.0	53	100	0	212	30	13	30	26	1.94
1234857--1234928	30	2.4	30	92	0	117	30	25	20	23	1.99
1234915--1235228	31	10.0	31	74	11	273	30	19	17	32	1.95
1234940--1235231	63	4.7	63	96	0	532	30	18	17	33	1.94
1236387--1236543	64	2.5	64	77	12	162	27	19	19	33	1.96
1239688--1239758	29	2.4	30	88	4	108	30	25	18	25	1.98
1239768--1239980	32	6.9	32	74	16	191	30	18	17	34	1.94
1239768--1239983	63	3.5	63	90	6	361	30	18	17	34	1.94
1242354--1242661	55	5.6	55	78	5	291	41	14	11	32	1.81
1242279--1242661	55	7.1	54	75	8	242	40	15	10	32	1.82
1242396--1242659	109	2.4	110	78	3	262	42	13	11	33	1.80
1246197--1246279	29	2.8	28	74	7	76	67	2	9	20	1.31
1246315--1246376	29	2.1	30	85	8	83	53	1	14	30	1.51
1246642--1246689	24	2.0	24	100	0	96	37	16	8	37	1.79
1247047--1247092	11	4.2	11	88	0	65	10	4	39	45	1.59
1247051--1247095	22	2.0	22	95	0	81	13	2	42	42	1.56
1247513--1247624	44	2.5	44	80	5	120	26	17	17	37	1.93
1247512--1247676	88	1.9	88	79	5	190	29	16	19	34	1.94
1247548--1247904	132	2.7	131	83	5	450	32	17	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249094--1249243	52	2.8	54	85	5	223	40	18	11	29	1.85
1249249--1249554	55	5.6	55	78	4	276	44	14	9	31	1.77
1249291--1249554	109	2.4	110	82	3	307	45	14	9	31	1.77
1251578--1251662	12	6.2	13	70	17	57	4	15	1	78	0.97
1251595--1251658	25	2.6	25	79	18	71	6	17	1	75	1.09
1253861--1253974	59	1.9	59	92	0	192	35	22	17	24	1.95
1253867--1253989	59	2.1	59	85	0	165	34	26	15	23	1.95
1254203--1254309	51	2.3	47	84	12	132	53	12	0	33	1.45
1256126--1256379	44	5.8	43	89	1	364	40	13	20	25	1.90
1262139--1262180	22	2.0	21	90	4	66	38	2	38	21	1.67
1263207--1263419	44	4.9	44	82	0	266	42	13	21	23	1.87
1263207--1263420	88	2.4	87	86	0	293	42	13	21	23	1.87
1265056--1265086	2	15.5	2	100	0	62	48	0	0	51	1.00
1267051--1267146	27	3.5	27	84	1	120	44	23	11	19	1.83
1276751--1276799	6	8.2	6	95	0	80	30	48	16	4	1.64
1276797--1276850	5	10.8	5	93	0	63	14	37	40	7	1.74
1282710--1282746	6	6.2	6	93	0	65	32	48	16	2	1.60
1282744--1282782	5	7.8	5	91	0	51	17	35	41	5	1.72
1287769--1287793	6	4.2	6	100	0	50	36	48	16	0	1.46
1287791--1287844	5	10.8	5	93	0	81	18	37	40	3	1.69
1288748--1288803	28	2.0	28	96	0	103	50	7	1	41	1.40
1292302--1292335	17	2.1	16	89	10	52	29	11	11	47	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293969--1294031	27	2.4	28	79	15	71	50	6	3	39	1.44
1294008--1294042	16	2.2	16	90	10	54	57	0	2	40	1.14
1294128--1294176	25	1.9	25	83	4	62	48	8	6	36	1.58
1297178--1297218	15	2.7	15	92	0	64	26	19	21	31	1.97
1304325--1304368	21	2.1	21	83	8	54	34	2	40	22	1.67
1308337--1308648	153	2.0	156	97	2	594	24	21	17	36	1.94
1312038--1312094	30	1.9	30	85	3	80	49	15	3	31	1.62
1312036--1312101	29	2.3	28	79	7	78	53	13	4	28	1.60
1313278--1313306	2	14.5	2	100	0	58	51	0	0	48	1.00
1314010--1314142	36	3.6	36	81	8	137	42	3	6	48	1.43
1313973--1314306	37	8.9	36	72	13	203	44	4	6	44	1.48
1313973--1314314	72	4.5	72	75	12	244	44	4	6	45	1.47
1314954--1314986	16	2.1	16	88	11	50	75	21	0	3	0.93
1315197--1315226	12	2.5	12	94	0	51	3	30	56	10	1.48
1320885--1321512	165	3.8	163	95	1	1040	29	26	21	22	1.99
1322192--1322321	36	3.5	36	81	8	131	42	3	6	48	1.43
1322155--1322496	72	4.5	75	72	15	210	44	4	6	45	1.48
1322155--1322488	37	8.9	36	72	13	194	44	4	6	44	1.49
1322533--1322574	3	14.3	3	80	14	52	26	2	0	71	0.98
1323139--1323171	16	2.1	16	88	11	50	75	21	0	3	0.93
1325015--1325051	17	2.2	17	95	0	65	27	29	18	24	1.98
1326209--1326290	13	5.9	14	72	22	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326195--1326292	14	6.4	15	71	21	53	47	0	0	52	1.00
1331521--1331574	27	2.0	27	100	0	108	37	14	11	37	1.82
1334718--1334756	15	2.7	14	84	7	51	41	28	10	20	1.85
1339582--1339645	21	3.0	21	79	9	67	15	25	37	21	1.93
1350736--1350770	15	2.3	15	100	0	70	31	5	31	31	1.81
1358203--1358348	60	2.5	59	79	8	149	39	2	23	34	1.69
1359082--1359571	229	2.1	229	92	2	808	44	7	7	40	1.61
1361863--1361906	21	2.1	21	91	0	70	40	11	31	15	1.83
1361940--1362005	33	2.0	33	90	0	105	28	0	48	22	1.51
1363801--1363849	19	2.6	19	93	0	80	30	2	10	57	1.43
1363988--1365113	198	5.7	198	96	0	2027	36	14	17	31	1.90
1366579--1366664	6	14.3	6	80	0	73	38	8	33	19	1.82
1366582--1366660	36	2.2	36	93	0	131	36	8	34	20	1.84
1366582--1366664	12	6.9	12	85	0	103	37	8	33	20	1.83
1367862--1367895	16	2.1	16	88	0	50	47	8	20	23	1.78
1368256--1368328	23	3.2	23	88	0	101	34	4	21	39	1.73
1368709--1369201	183	2.7	182	94	1	869	34	15	17	33	1.91
1371643--1371698	25	2.2	25	87	0	76	33	8	14	42	1.77
1372039--1372096	23	2.5	23	94	0	98	37	5	18	37	1.74
1372039--1372106	23	3.0	22	85	8	82	35	4	20	39	1.73
1372371--1372418	24	2.0	24	91	0	78	29	6	22	41	1.78
1373010--1373096	39	2.2	39	91	0	138	48	20	12	18	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373509--1373579	23	3.1	23	87	4	90	32	4	22	40	1.73
1373932--1373995	23	2.8	23	90	0	101	35	4	21	37	1.75
1374356--1374415	23	2.6	23	91	0	93	36	5	20	38	1.74
1374356--1374428	23	3.2	23	82	7	85	35	4	20	39	1.72
1373322--1375204	424	4.4	429	96	2	3448	40	8	12	38	1.73
1374781--1374853	23	3.2	23	94	0	128	35	5	20	38	1.76
1373322--1375204	850	2.2	850	96	2	3441	40	8	12	38	1.73
1375924--1375977	26	2.1	26	89	3	83	51	9	5	33	1.57
1379486--1379525	19	2.1	19	100	0	80	35	0	27	37	1.57
1379491--1379532	19	2.2	19	86	0	57	45	2	19	33	1.63
1384341--1384647	153	2.0	153	99	0	605	43	18	13	25	1.86
1385528--1385657	66	2.0	66	87	6	192	20	20	20	37	1.94
1392629--1392669	22	1.9	21	90	5	64	70	2	0	26	0.99
1393626--1393682	7	7.4	7	77	13	51	40	1	1	56	1.20
1401998--1402313	157	2.0	157	98	1	614	23	17	30	28	1.97
1411097--1411276	89	2.0	91	97	2	346	35	13	20	31	1.91
1414483--1414655	83	2.1	84	97	1	330	35	12	23	27	1.91
1418621--1418654	17	2.1	16	88	5	50	76	0	8	14	1.01
1421501--1421544	20	2.2	20	84	4	63	65	0	15	18	1.27
1429335--1429365	15	2.0	16	93	6	55	35	25	0	38	1.56
1429570--1430066	38	13.0	38	80	3	514	25	20	18	36	1.95
1429999--1430202	45	4.7	43	78	12	154	23	17	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430200--1430520	134	2.4	134	85	2	430	29	18	19	32	1.96
1430674--1430739	3	22.3	3	96	3	125	34	0	0	65	0.93
1436059--1436108	24	2.1	24	85	7	66	26	2	12	60	1.43
1439113--1439889	394	2.0	394	97	0	1464	30	18	23	28	1.97
1446724--1446774	24	2.1	24	85	7	68	25	1	11	60	1.41
1449133--1449304	82	2.1	83	86	4	242	43	12	9	34	1.75
1449595--1449640	23	2.0	23	95	0	83	36	0	41	21	1.54
1451950--1452001	4	13.0	4	95	0	77	30	19	0	50	1.48
1454330--1454365	11	3.3	11	88	0	54	69	5	8	16	1.33
1458572--1458601	13	2.3	13	94	0	51	0	10	10	80	0.92

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