genome.fa.s8242.2.7.7.80.10.50.1000.51.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  51  of  73  ( 8740 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)
12131247--12131901	329	2.0	325	98	1	1274	32	18	10	37	1.85
12136658--12136688	13	2.4	13	94	0	53	19	19	41	19	1.90
12140981--12141011	13	2.4	13	94	0	53	19	19	41	19	1.90
12143416--12143499	21	4.0	21	83	6	91	32	25	9	33	1.88
12143416--12143499	42	2.0	41	84	6	107	32	25	9	33	1.88
12143440--12143572	20	6.6	20	75	9	92	30	21	12	35	1.91
12143442--12143571	40	3.2	40	79	5	145	29	21	13	36	1.91
12143728--12143765	16	2.5	15	84	12	51	28	5	0	65	1.14
12144517--12144570	24	2.2	24	93	0	90	20	18	20	40	1.91
12147054--12147098	20	2.2	20	88	0	63	24	17	22	35	1.95
12148588--12148663	21	3.7	20	84	8	98	22	18	36	22	1.95
12148945--12148998	21	2.6	21	84	0	72	35	29	16	18	1.93
12149068--12149117	21	2.4	21	75	0	55	36	32	12	20	1.89
12150602--12150700	20	4.9	20	76	4	101	51	16	18	14	1.76
12150602--12150700	40	2.5	40	83	0	117	51	16	18	14	1.76
12150732--12150770	20	2.0	20	89	0	60	17	10	17	53	1.71
12151314--12151360	20	2.3	20	96	0	85	23	17	23	36	1.95
12159982--12160141	65	2.5	65	84	5	200	26	18	24	31	1.97
12159982--12160191	65	3.3	63	78	12	196	25	17	24	31	1.97
12160614--12160644	2	15.5	2	100	0	62	51	0	0	48	1.00
12161197--12161240	21	2.1	21	82	0	52	31	15	43	9	1.79
12166676--12166715	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12168668--12168892	65	3.5	65	91	3	330	27	18	23	30	1.98
12171618--12171700	23	3.7	23	86	1	105	30	28	20	20	1.98
12182874--12182920	22	2.1	23	88	11	71	10	0	25	63	1.26
12183197--12183231	12	2.8	13	86	8	54	45	8	5	40	1.58
12185035--12185064	15	2.0	15	93	0	51	33	10	26	30	1.89
12185869--12185922	23	2.3	25	78	18	62	12	0	27	59	1.34
12186201--12186235	12	2.8	13	91	8	63	48	8	5	37	1.58
12188887--12188940	23	2.3	25	78	18	62	12	0	27	59	1.34
12189220--12189255	12	2.8	13	87	8	56	44	8	5	41	1.58
12190540--12190595	20	2.7	21	76	13	62	33	17	14	33	1.90
12204903--12205426	72	7.3	73	80	11	521	33	16	12	37	1.86
12204916--12205243	38	9.0	37	69	14	216	33	15	13	37	1.87
12205149--12205261	39	3.0	39	73	10	126	34	15	11	38	1.83
12204903--12205343	139	3.1	142	82	9	481	33	16	13	37	1.87
12205202--12205331	64	2.0	65	92	1	217	36	14	11	36	1.83
12205708--12205968	94	2.8	94	80	6	271	32	21	17	28	1.96
12210600--12210689	20	4.5	20	94	0	144	31	21	30	17	1.96
12210688--12210873	91	2.0	94	94	4	333	23	16	34	25	1.95
12210806--12210880	21	3.6	21	75	18	75	21	20	36	22	1.96
12212291--12212328	19	2.0	20	94	5	69	36	13	5	44	1.66
12213804--12213873	34	2.1	32	89	5	104	22	30	15	31	1.95
12214152--12214205	21	2.6	21	96	0	99	20	24	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12214260--12214353	20	4.7	20	83	0	107	31	20	27	20	1.97
12225651--12226161	254	2.0	255	97	2	965	26	16	20	36	1.94
12226197--12226228	16	1.9	17	93	6	57	12	21	28	37	1.90
12228605--12228814	81	2.6	81	92	1	332	22	21	22	33	1.97
12231815--12231855	22	1.9	22	90	5	66	26	7	19	46	1.76
12231899--12232449	81	6.8	81	84	1	687	38	12	21	27	1.89
12232278--12232321	22	2.0	22	90	0	70	38	11	20	29	1.87
12231915--12232449	243	2.2	242	88	2	779	38	12	21	28	1.90
12239213--12239669	81	5.6	81	84	1	529	39	11	19	29	1.87
12239397--12239446	22	2.2	22	85	3	64	42	12	22	24	1.87
12239405--12239448	22	2.0	22	95	0	79	38	13	20	27	1.90
12239188--12239629	243	1.8	243	85	1	625	38	11	20	29	1.87
12248320--12248358	19	2.1	19	100	0	78	25	20	0	53	1.45
12250415--12250447	16	2.0	17	88	5	50	21	27	6	45	1.75
12253528--12253579	26	1.9	28	84	7	72	36	17	17	28	1.92
12253684--12253721	20	1.9	20	100	0	76	26	0	18	55	1.43
12259715--12261514	732	2.5	733	90	1	2851	34	14	17	33	1.90
12262215--12262248	14	2.4	14	90	0	50	17	41	11	29	1.85
12262551--12262713	44	3.7	44	81	7	172	34	22	14	29	1.93
12262595--12262723	43	3.0	41	84	9	152	34	22	13	30	1.92
12265705--12265942	124	1.9	122	81	5	282	31	15	15	36	1.90
12269755--12269814	27	2.2	28	84	3	77	55	21	5	18	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12271503--12271536	15	2.3	15	95	5	61	20	8	38	32	1.84
12283210--12283258	23	2.1	23	92	0	80	38	8	20	32	1.82
12286250--12286292	21	2.0	21	86	0	59	39	11	11	37	1.78
12286318--12286633	164	1.9	163	86	0	452	27	13	13	44	1.82
12286474--12287310	183	4.6	183	88	1	1144	27	15	13	43	1.83
12286474--12287310	365	2.3	365	87	3	1191	27	15	13	43	1.83
12287499--12287523	11	2.3	11	100	0	50	24	24	20	32	1.98
12288034--12288090	9	6.7	9	76	11	57	31	1	1	64	1.13
12288033--12288082	17	3.0	17	91	2	75	34	2	4	60	1.27
12288042--12288087	16	2.9	16	87	6	58	30	2	2	65	1.16
12291789--12291880	43	2.1	43	91	0	148	25	20	19	34	1.96
12292179--12292203	13	1.9	13	100	0	50	40	4	0	56	1.18
12308438--12308914	55	8.7	54	85	5	561	31	24	16	27	1.96
12308438--12308914	110	4.3	110	87	3	626	31	24	16	27	1.96
12310247--12310424	7	24.0	7	72	18	87	7	17	0	74	1.03
12310266--12310353	29	3.0	29	79	12	99	5	23	0	70	1.08
12310326--12310389	34	1.9	34	84	9	87	6	14	0	79	0.91
12310378--12310419	22	1.9	22	95	0	75	11	9	0	78	0.96
12310350--12310417	8	8.2	8	75	18	52	10	8	0	80	0.89
12310345--12310398	27	2.0	27	85	7	74	9	11	0	79	0.93
12310352--12310409	27	2.1	27	81	12	66	10	8	0	81	0.89
12316349--12316738	194	2.0	196	98	1	757	27	26	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12320152--12320303	46	3.3	46	88	4	207	38	19	11	30	1.87
12323547--12323609	31	2.0	31	87	0	90	36	6	9	47	1.62
12329897--12329934	20	1.9	20	88	0	58	21	10	36	31	1.87
12331434--12331476	19	2.3	19	100	0	86	23	11	4	60	1.50
12331470--12331499	15	2.0	15	100	0	60	13	6	6	73	1.24
12331472--12331505	15	2.3	15	89	0	50	11	11	8	67	1.42
12336213--12336374	65	2.5	65	92	2	254	27	14	24	32	1.95
12336233--12336402	65	2.6	65	91	1	243	30	14	24	30	1.94
12337080--12337205	47	2.8	45	89	5	191	30	23	7	38	1.83
12337306--12337435	59	2.2	59	88	0	188	30	25	16	27	1.97
12340048--12340072	2	12.5	2	100	0	50	52	0	0	48	1.00
12342041--12342140	44	2.2	45	89	5	150	29	20	21	30	1.98
12342041--12342143	23	4.7	21	68	13	64	29	20	21	29	1.98
12352664--12352762	36	2.8	36	90	0	162	25	15	17	42	1.88
12364128--12364158	2	15.5	2	100	0	62	48	0	0	51	1.00
12368731--12368793	31	2.0	31	87	6	92	26	17	7	47	1.75
12383104--12383175	26	2.8	26	95	0	126	27	25	2	44	1.68
12383671--12383977	74	4.1	74	96	0	551	35	14	13	37	1.84
12386037--12386081	23	2.0	23	86	0	63	26	28	24	20	1.99
12386060--12386363	149	2.0	149	99	0	599	34	20	17	27	1.95
12387242--12387276	18	1.9	18	88	11	54	22	17	5	54	1.64
12387860--12387904	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12390440--12390491	22	2.3	24	83	9	65	55	7	0	36	1.29
12390842--12390947	53	1.9	54	84	7	142	32	17	6	43	1.75
12395729--12395879	74	2.0	74	89	5	234	32	13	13	39	1.85
12395980--12396039	25	2.4	25	94	0	102	46	0	8	45	1.33
12395947--12396029	36	2.4	34	73	13	80	45	2	7	44	1.44
12396005--12396198	73	2.6	72	80	8	212	43	3	7	44	1.50
12396005--12396199	38	5.3	37	81	7	213	44	3	7	44	1.50
12396162--12396263	48	2.2	46	81	11	111	50	2	2	44	1.32
12396290--12396314	3	8.3	3	100	0	50	32	0	0	68	0.90
12397967--12398871	84	11.0	83	77	5	809	29	24	20	25	1.99

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73