genome.fa.s190.2.7.7.80.10.50.1000.56.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  56  of  62  ( 7381 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)
13102108--13102146	19	2.1	19	85	0	51	58	0	2	38	1.12
13111565--13111613	23	2.1	23	84	0	62	59	12	12	16	1.62
13114804--13114947	74	1.9	74	98	0	279	40	15	15	28	1.88
13115720--13115768	2	24.5	2	100	0	98	48	0	0	51	1.00
13117377--13117410	17	2.0	17	88	11	52	64	0	0	35	0.94
13117625--13117671	21	2.3	21	92	7	80	68	4	6	21	1.30
13119278--13119718	105	4.2	105	94	0	740	22	19	26	31	1.98
13122097--13122122	3	8.7	3	100	0	52	69	0	0	30	0.89
13122629--13122662	17	2.0	17	88	11	52	70	0	0	29	0.87
13122875--13122921	21	2.3	21	92	7	80	68	4	6	21	1.30
13126524--13126640	57	2.0	58	88	1	173	33	18	13	34	1.90
13127355--13127446	39	2.4	39	90	0	157	34	15	36	13	1.86
13130393--13130458	23	3.0	22	75	16	64	59	3	1	36	1.22
13131270--13131767	249	2.0	252	98	1	966	37	14	11	36	1.82
13131341--13131839	249	2.0	243	84	8	623	41	13	10	34	1.79
13133705--13134120	165	2.5	164	80	6	452	32	24	16	26	1.96
13133679--13134102	55	7.7	55	84	3	378	30	25	16	27	1.97
13135484--13135564	17	4.8	17	72	14	60	7	20	0	71	1.10
13145182--13145279	45	2.1	46	88	3	153	40	20	12	26	1.87
13149881--13149920	16	2.5	16	84	8	55	55	0	0	45	0.99
13150042--13150157	43	3.0	35	69	25	88	47	12	0	38	1.48
13150167--13150206	21	1.9	21	100	0	80	57	15	0	27	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13150258--13150291	17	1.9	18	94	5	61	61	2	0	35	1.11
13150462--13150523	23	2.7	23	80	9	72	41	12	20	24	1.87
13150436--13150646	105	2.0	105	100	0	422	33	17	20	28	1.96
13150567--13150628	23	2.7	23	80	9	72	41	12	20	24	1.87
13150758--13150814	29	2.0	29	89	0	87	21	24	31	22	1.98
13150842--13150917	29	2.6	29	91	0	125	21	36	22	19	1.95
13151913--13151990	37	2.3	34	84	10	97	24	15	16	43	1.86
13152971--13153005	17	2.1	17	89	5	54	42	5	17	34	1.73
13153832--13153869	19	2.0	19	89	0	58	21	26	26	26	1.99
13153863--13153895	5	6.8	5	86	6	50	21	54	21	3	1.58
13160792--13160861	9	7.3	9	76	9	59	15	22	28	32	1.95
13163476--13163508	9	3.7	9	88	12	50	21	3	0	75	0.93
13163438--13163914	142	3.4	136	81	10	538	22	13	14	49	1.78
13164077--13164119	19	2.3	19	95	0	77	20	6	0	72	1.08
13164087--13164145	28	2.1	28	87	0	82	20	6	1	71	1.18
13165694--13165750	30	1.9	30	89	3	89	17	15	8	57	1.63
13167225--13167562	168	2.0	168	100	0	676	28	17	11	42	1.84
13167758--13167907	20	7.6	21	75	18	80	82	0	13	3	0.83
13167777--13167925	41	3.6	40	81	10	176	84	0	13	2	0.71
13167778--13167922	7	19.9	7	81	14	127	84	0	13	2	0.72
13167796--13167887	1	92.0	1	82	0	103	90	0	7	2	0.54
13167781--13167921	4	37.8	4	75	19	65	83	0	14	2	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13167778--13167923	50	3.0	48	83	6	168	84	0	13	2	0.72
13167778--13167923	16	8.7	18	76	15	86	84	0	13	2	0.72
13168553--13168605	27	1.9	28	88	3	81	39	33	3	22	1.72
13170413--13171560	132	8.7	132	83	3	1361	32	19	16	30	1.95
13170528--13171549	44	23.3	44	68	4	389	33	19	17	29	1.95
13172783--13172836	18	3.0	18	94	0	90	31	31	20	16	1.95
13173500--13173568	35	2.0	35	88	0	102	24	26	18	30	1.98
13174537--13174680	21	6.8	21	66	9	67	36	24	18	20	1.95
13177202--13177623	142	3.0	142	86	1	605	22	14	15	46	1.83
13178228--13178557	125	2.5	129	78	9	341	23	13	12	50	1.75
13178521--13178545	12	2.1	12	100	0	50	16	0	8	76	1.02
13183356--13183395	20	2.0	20	95	0	71	15	30	37	17	1.90
13183741--13183812	24	3.0	24	93	2	119	22	43	0	34	1.54
13184838--13184885	19	2.5	20	82	3	62	29	12	6	52	1.63
13186165--13186205	20	2.0	20	90	9	66	17	29	36	17	1.92
13189194--13189262	23	3.0	23	86	0	93	27	26	26	20	1.99
13189278--13189495	103	2.1	103	95	0	391	37	24	13	25	1.92
13194834--13194871	2	19.5	2	94	5	69	52	0	0	47	1.00
13198076--13198138	28	2.2	30	78	18	71	53	3	1	41	1.26
13203672--13203746	29	2.6	29	83	10	82	68	0	5	26	1.11
13203786--13203830	18	2.5	18	92	7	74	71	0	4	24	1.05
13206171--13206218	20	2.4	20	89	6	71	75	0	4	20	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13206171--13206218	5	9.6	5	82	8	62	75	0	4	20	0.97
13209317--13209355	19	2.1	19	95	0	69	20	38	15	25	1.92
13215252--13215307	22	2.7	21	83	10	62	30	23	17	28	1.97
13216843--13216886	21	2.1	21	86	0	61	9	36	15	38	1.80
13217906--13217944	19	2.1	19	95	0	69	20	38	15	25	1.92
13228793--13228841	24	2.0	24	84	7	64	44	4	0	51	1.20
13235907--13236072	21	7.8	21	71	10	104	21	13	25	38	1.91
13235962--13236072	44	2.6	42	77	5	114	21	13	27	36	1.91
13235907--13236070	42	3.9	42	76	3	130	21	14	25	39	1.91
13236567--13236601	10	3.6	10	88	3	54	31	11	11	45	1.76
13238248--13238288	12	3.5	12	78	15	50	65	2	31	0	1.05
13243718--13243787	20	3.5	20	96	0	131	31	14	28	25	1.95
13244638--13244726	21	4.2	21	80	5	99	24	12	24	38	1.90
13244653--13244760	42	2.5	42	79	5	110	27	13	21	37	1.91
13245923--13245959	18	2.1	17	90	10	56	16	13	16	54	1.72
13248935--13249028	3	32.3	3	79	6	95	34	4	0	61	1.15
13248935--13249016	15	5.6	15	84	2	105	35	4	0	59	1.19
13250594--13250640	24	1.9	25	91	4	78	53	8	4	34	1.51
13250723--13250825	2	51.5	2	100	0	206	49	0	0	50	1.00
13253775--13253836	20	3.2	20	86	2	81	17	11	9	61	1.56
13259489--13259543	20	2.6	22	85	11	87	34	14	12	38	1.84
13260229--13260912	45	15.2	45	91	0	1048	23	21	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13260229--13261001	45	17.3	44	88	3	579	23	22	20	33	1.97
13261144--13261254	3	37.3	3	90	3	172	34	0	0	64	1.00
13262882--13262929	18	2.5	19	80	10	53	27	2	2	68	1.11
13263007--13263040	2	17.0	2	100	0	68	50	0	0	50	1.00
13264840--13265291	133	3.4	134	84	4	570	30	20	15	33	1.93
13265480--13265517	3	12.7	3	94	0	67	34	0	2	63	1.09
13267990--13268050	23	2.7	23	100	0	122	29	27	26	16	1.97
13272991--13273051	23	2.7	23	86	0	95	29	26	26	18	1.98
13278421--13278454	2	17.0	2	100	0	68	50	0	0	50	1.00
13283085--13283123	17	2.3	17	100	0	78	12	23	46	17	1.83
13290363--13290401	17	2.3	17	95	0	69	12	23	43	20	1.86
13296703--13296768	32	2.1	32	97	0	123	40	10	13	34	1.79
13297827--13297855	2	15.0	2	92	7	51	51	0	0	48	1.00
13302575--13302639	20	3.2	20	77	12	60	33	18	23	24	1.96
13302728--13303228	39	12.9	39	89	1	695	36	15	18	30	1.92
13303218--13303556	76	4.5	76	84	5	422	40	11	17	30	1.85
13303203--13303554	147	2.4	147	85	4	472	40	11	17	30	1.85
13305027--13305098	16	4.5	17	77	8	62	2	13	1	81	0.86
13305021--13305182	7	22.3	7	69	17	66	3	17	2	76	1.04
13305043--13305099	8	7.1	8	80	11	64	1	10	1	85	0.73
13305045--13305179	17	7.8	17	68	17	66	3	16	2	77	1.01
13305033--13305099	17	4.1	16	74	16	57	1	13	1	83	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13305117--13305179	29	2.2	29	80	5	74	3	17	3	76	1.05
13305026--13305182	24	6.8	24	66	21	61	3	17	1	76	1.03
13308081--13308124	21	2.1	21	83	8	54	18	15	22	43	1.88
13316288--13316312	13	1.9	13	100	0	50	8	0	32	60	1.26
13326973--13327303	181	1.8	181	86	1	475	32	15	18	33	1.92
13326971--13327344	181	2.1	180	83	2	471	33	16	17	33	1.92
13331067--13331101	18	1.9	18	88	0	52	48	0	0	51	1.00
13331372--13331443	33	2.2	33	84	0	90	37	26	13	22	1.92
13334064--13334198	65	2.1	64	84	4	173	31	21	18	28	1.97
13334090--13334217	65	2.0	65	79	3	141	33	19	17	29	1.95

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