genome.fa.s9175.2.7.7.80.10.50.1000.7.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   50   51   

This is table  7  of  51  ( 6037 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)
1205571--1205646	20	3.8	20	92	0	116	36	22	19	21	1.95
1205688--1205737	20	2.5	20	90	0	73	18	18	28	36	1.94
1205705--1205759	20	2.8	20	91	0	83	10	16	23	49	1.77
1205724--1205767	20	2.2	20	87	0	61	13	13	20	52	1.74
1207220--1207249	6	5.0	6	91	0	51	16	63	0	20	1.31
1207620--1207817	20	10.5	20	82	12	267	41	20	19	18	1.91
1207620--1207838	34	5.9	37	77	18	201	42	20	19	17	1.89
1207620--1207817	94	2.1	94	97	0	369	41	20	19	18	1.91
1207620--1207855	54	4.3	57	85	7	246	41	19	19	18	1.90
1207864--1207970	20	5.3	20	94	0	178	21	19	20	38	1.94
1208454--1208558	21	5.0	20	68	12	68	21	36	19	22	1.95
1208479--1208561	42	2.0	42	83	4	105	22	37	19	20	1.94
1209913--1209948	14	2.6	14	90	0	54	30	0	22	47	1.52
1210050--1210145	33	2.8	33	90	3	138	41	20	23	13	1.88
1210083--1210150	19	3.8	19	72	21	74	45	19	22	13	1.84
1210164--1210209	19	2.4	19	100	0	92	15	19	17	47	1.82
1210214--1210307	20	4.7	20	88	2	127	20	20	24	35	1.96
1210819--1210902	20	4.2	20	78	6	98	21	20	20	38	1.94
1210904--1210947	21	2.1	21	86	0	61	38	15	27	18	1.91
1215356--1215436	39	2.1	39	90	0	126	44	7	12	35	1.70
1216510--1216569	14	4.3	14	71	0	57	53	20	10	16	1.71
1219690--1219756	32	2.1	33	91	2	109	52	11	11	23	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227305--1227368	3	21.3	3	80	6	76	60	0	0	39	0.97
1227533--1228169	76	8.4	76	95	0	1141	34	22	19	23	1.96
1228843--1228897	22	2.5	22	93	0	101	40	14	10	34	1.81
1229318--1229472	54	2.9	54	91	1	231	24	22	13	39	1.90
1233339--1233400	32	1.9	32	96	0	115	19	17	20	41	1.90
1233917--1233953	14	2.5	15	87	12	51	0	16	0	83	0.64
1233903--1233948	23	2.0	24	82	4	58	0	19	2	78	0.86
1236767--1236824	28	2.0	28	86	3	80	63	6	10	18	1.47
1236782--1236812	16	1.9	16	93	0	53	67	9	6	16	1.39
1236884--1236925	7	6.0	7	78	10	50	57	11	16	14	1.66
1238998--1239266	147	1.8	147	85	4	371	47	7	8	35	1.63
1239421--1239462	12	3.6	12	80	3	50	64	2	2	30	1.19
1240817--1240877	3	20.3	3	80	6	70	60	0	0	39	0.97
1242436--1242470	15	2.4	15	90	4	54	20	14	11	54	1.70
1242523--1242551	11	2.6	11	100	0	58	24	10	41	24	1.86
1242986--1243026	10	3.8	10	82	17	55	60	21	9	7	1.52
1242969--1243026	23	2.5	24	94	2	100	58	20	12	8	1.59
1242969--1243034	23	2.8	23	88	6	80	59	22	10	7	1.56
1243285--1243359	24	3.2	24	74	14	66	53	18	10	17	1.72
1244912--1244965	27	2.0	27	89	7	83	40	7	14	37	1.74
1245012--1245066	29	1.9	28	85	10	76	61	5	0	32	1.19
1245061--1245118	19	3.3	19	69	30	65	53	1	3	41	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245009--1245131	33	3.8	33	80	12	148	59	4	1	34	1.26
1245078--1245135	19	3.3	19	68	22	63	56	3	1	37	1.26
1245070--1245156	33	2.6	33	88	3	120	60	2	2	34	1.22
1247444--1247483	21	1.9	21	85	10	55	57	0	37	5	1.21
1256413--1256473	29	2.1	29	93	0	104	37	6	6	49	1.55
1256425--1256474	15	3.4	15	68	15	50	40	4	6	50	1.46
1259368--1259593	117	1.9	117	86	0	317	36	15	19	29	1.92
1260721--1260788	32	2.2	31	81	7	75	45	19	7	27	1.76
1260749--1260917	32	5.3	32	70	7	110	39	21	11	27	1.87
1260775--1260936	66	2.5	62	80	9	173	37	22	12	27	1.90
1262198--1262249	20	2.6	19	79	8	59	65	1	0	32	1.04
1262107--1262343	121	2.0	118	84	3	305	46	8	6	37	1.62
1262410--1262485	29	2.7	28	71	13	66	67	3	1	27	1.17
1263400--1263444	23	2.0	23	81	0	54	0	33	11	55	1.35
1263933--1264278	139	2.5	139	88	2	482	26	19	14	40	1.89
1264207--1265227	113	8.7	123	81	10	749	27	19	14	39	1.90
1264569--1265240	113	5.9	113	87	2	893	27	19	14	38	1.90
1264569--1265240	228	3.0	224	87	3	945	27	19	14	38	1.90
1265648--1265793	44	3.3	44	95	0	247	39	11	15	34	1.83
1265648--1265787	66	2.1	66	94	0	244	38	12	13	35	1.82
1265648--1265793	22	6.6	22	91	0	220	39	11	15	34	1.83
1268315--1268646	114	2.9	114	89	1	495	31	19	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268315--1268646	115	2.9	114	89	1	486	31	19	14	34	1.92
1270760--1270816	26	2.2	26	81	6	62	5	15	0	78	0.91
1270811--1270856	23	2.0	23	95	0	83	6	13	13	67	1.41
1276109--1276156	16	2.9	16	81	6	60	75	0	2	22	0.91
1276115--1276151	18	2.0	20	89	10	60	70	0	2	27	1.01
1276747--1276798	20	2.6	19	79	8	59	65	1	0	32	1.04
1276656--1276892	121	2.0	118	85	3	314	47	8	6	37	1.60
1276959--1277034	29	2.7	28	71	13	66	68	2	1	27	1.11
1278858--1278885	9	3.1	9	100	0	56	0	46	0	53	1.00
1286916--1287103	55	3.4	55	77	10	170	26	23	17	32	1.96
1287323--1287423	42	2.4	41	75	3	103	32	22	18	25	1.97
1287548--1288103	34	15.9	34	86	4	643	21	20	21	35	1.96
1287540--1288103	106	5.4	103	84	6	681	21	20	21	35	1.96
1290939--1290981	2	22.0	2	95	4	79	48	0	0	51	1.00
1293093--1293125	6	5.3	6	92	7	57	51	18	15	15	1.77
1293093--1293122	13	2.4	13	94	5	53	46	20	16	16	1.84
1296908--1296957	24	2.1	24	85	7	66	60	14	2	24	1.45
1303408--1303490	40	2.1	40	95	0	148	39	19	24	16	1.91
1311197--1311253	29	2.0	29	96	0	105	40	14	10	35	1.80
1311995--1312073	23	3.5	22	77	11	72	41	0	3	54	1.18
1312347--1312371	11	2.3	11	100	0	50	56	0	8	36	1.29
1317944--1317982	17	2.3	17	90	0	60	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322136--1322192	30	1.9	30	96	0	105	31	10	10	47	1.72
1322499--1322850	44	8.1	42	82	6	407	32	19	22	25	1.97
1322528--1322850	87	3.7	86	87	3	450	32	18	21	26	1.97
1322561--1322850	130	2.2	129	85	4	384	32	18	22	26	1.97
1324633--1324664	17	1.9	17	93	6	57	43	0	3	53	1.16
1324677--1324903	95	2.4	95	93	1	386	38	14	9	37	1.79
1324813--1324987	81	2.2	81	85	3	244	37	16	8	37	1.78
1324942--1325110	74	2.4	71	82	6	193	40	15	6	36	1.74
1324652--1325222	168	3.4	166	78	11	627	39	15	8	37	1.77
1325110--1325223	37	3.1	36	63	14	88	40	14	9	35	1.79
1325078--1325379	74	4.0	75	78	10	303	39	15	8	36	1.78
1325226--1325379	80	1.9	81	93	4	267	39	15	7	37	1.76
1328008--1328052	21	2.2	20	84	4	54	31	22	17	28	1.97
1328008--1328058	20	2.5	21	83	3	59	31	23	17	27	1.97
1328022--1328068	20	2.3	20	85	0	58	23	31	14	29	1.95
1330041--1330096	25	2.3	24	77	19	71	42	1	0	55	1.10
1330027--1330136	32	3.4	32	86	5	150	40	0	0	59	1.04
1330075--1330126	14	3.4	14	73	19	50	42	0	0	57	0.98
1330120--1330166	9	5.4	9	89	5	71	21	2	0	76	0.89
1330120--1330166	17	2.7	18	87	9	71	21	2	0	76	0.89
1330120--1330155	8	4.4	8	96	3	63	22	0	0	77	0.76
1335427--1335499	36	2.0	36	100	0	146	35	8	16	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335620--1335849	117	2.0	117	88	1	345	30	11	19	37	1.88
1335740--1336304	143	4.0	144	85	3	766	33	11	18	36	1.86
1335744--1336300	285	2.0	286	89	1	850	33	10	18	37	1.86
1341051--1341075	11	2.3	11	100	0	50	56	0	8	36	1.29
1342270--1342305	2	18.5	2	94	5	65	50	0	0	50	1.00
1356573--1356778	103	2.0	106	83	4	267	28	23	4	43	1.73
1363662--1363688	6	4.5	6	100	0	54	66	18	0	14	1.25
1364916--1364965	21	2.4	21	100	0	100	40	0	18	42	1.50
1366871--1366996	63	2.0	63	100	0	252	41	6	26	25	1.79
1368415--1368473	30	1.9	31	82	6	75	44	1	15	38	1.56

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   50   51