genome.fa.s9585.2.7.7.80.10.50.1000.28.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  28  of  35  ( 4106 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)
6436520--6436566	21	2.2	21	85	14	62	42	0	0	57	0.98
6436520--6436566	20	2.2	20	85	14	60	42	0	0	57	0.98
6441044--6441131	40	2.3	39	84	9	117	50	1	0	48	1.08
6441069--6441147	40	2.2	36	82	15	92	48	0	0	51	1.00
6441186--6441264	35	2.2	36	95	2	142	12	36	17	32	1.88
6444361--6444390	15	2.0	15	100	0	60	26	20	20	33	1.97
6447730--6447779	17	3.0	17	85	8	59	38	0	4	58	1.17
6448148--6448250	29	3.6	28	84	6	118	25	3	14	56	1.55
6453364--6454040	352	1.9	352	90	2	1072	33	18	14	34	1.90
6457079--6457124	17	2.8	17	96	3	85	17	10	10	60	1.57
6458590--6458659	21	3.3	21	81	0	95	44	15	38	1	1.56
6459030--6459133	41	2.4	44	78	14	117	28	20	23	27	1.99
6459092--6459328	43	5.5	42	79	3	172	32	23	18	24	1.97
6459093--6459334	86	2.8	85	74	5	207	32	23	18	25	1.97
6465101--6465155	24	2.3	24	100	0	110	38	16	27	18	1.92
6466548--6466588	6	6.1	7	83	16	52	43	41	0	14	1.45
6466549--6466587	20	2.0	19	90	5	60	46	43	0	10	1.37
6466548--6466591	14	3.2	14	81	12	56	45	38	0	15	1.47
6467557--6467610	23	2.3	23	93	0	90	14	20	22	42	1.88
6475463--6475520	24	2.4	24	91	0	89	36	18	20	24	1.95
6476983--6477040	23	2.5	23	94	0	98	18	29	24	27	1.98
6477439--6477472	17	1.9	18	88	5	52	32	5	17	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6479504--6479574	34	2.1	34	84	5	90	64	14	2	18	1.40
6486883--6486974	44	2.1	44	100	0	184	23	19	27	29	1.98
6492921--6492977	29	2.0	28	86	6	80	49	7	7	36	1.57
6501762--6501805	21	2.2	21	84	11	58	40	25	11	22	1.87
6505045--6505528	243	2.0	241	97	2	918	45	10	5	39	1.61
6507781--6507829	24	2.1	24	85	7	66	2	22	6	69	1.21
6508345--6508426	3	27.7	3	90	2	130	62	0	2	35	1.09
6508743--6509378	113	5.7	113	94	3	1094	28	18	14	38	1.90
6508743--6509378	221	2.9	224	94	2	1099	28	18	14	38	1.90
6510125--6510367	50	4.9	50	97	0	461	39	23	13	23	1.91
6510327--6510487	83	1.9	84	98	1	315	36	21	14	27	1.92
6511231--6511275	18	2.6	17	89	6	65	55	6	6	31	1.52
6522181--6522229	15	3.3	15	82	5	55	69	4	4	22	1.23
6524453--6524562	3	36.7	3	92	0	184	62	0	2	34	1.09
6526572--6526649	31	2.5	31	85	2	93	33	6	6	53	1.52
6536367--6536393	13	2.1	13	100	0	54	33	0	0	66	0.92
6543165--6543196	7	4.6	7	96	0	55	37	0	3	59	1.13
6543196--6543272	21	3.4	22	72	18	61	66	6	1	25	1.24
6543215--6543261	21	2.2	21	92	0	76	70	6	0	23	1.10
6543529--6543575	21	2.2	21	88	0	67	23	0	6	70	1.10
6543724--6543764	21	2.0	21	85	0	55	31	36	14	17	1.90
6556032--6556057	12	2.2	12	100	0	52	23	23	7	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6559144--6559194	23	2.2	23	82	0	57	29	11	15	43	1.82
6559414--6559499	24	3.6	24	73	6	84	53	9	10	26	1.65
6559389--6559491	48	2.1	48	78	7	111	56	9	8	25	1.60
6560544--6560613	28	2.6	27	84	8	81	52	27	2	17	1.58
6565570--6565633	27	2.3	28	84	7	78	45	25	9	20	1.80
6569914--6569961	3	15.7	3	83	12	62	35	2	0	62	1.07
6569920--6569964	10	4.3	10	83	10	63	37	2	0	60	1.09
6569914--6569961	13	3.9	12	82	12	62	35	2	0	62	1.07
6571446--6571498	2	26.5	2	100	0	106	49	0	0	50	1.00
6573291--6573323	16	2.1	16	100	0	66	39	30	18	12	1.87
6584650--6584753	40	2.5	40	79	4	118	25	30	16	27	1.96
6584919--6584973	3	17.7	3	85	7	74	34	1	0	63	1.05
6584926--6584976	10	5.3	10	90	4	79	37	1	0	60	1.08
6602229--6602285	19	2.9	20	78	5	62	45	1	0	52	1.11
6602205--6602285	39	2.0	41	83	4	103	46	1	0	51	1.08
6611080--6611148	37	1.9	37	85	11	99	53	8	8	28	1.61
6611080--6611155	34	2.2	34	82	15	86	56	9	7	26	1.58
6611154--6611237	34	2.5	34	80	16	95	61	13	2	22	1.43
6613506--6613561	17	3.3	18	73	12	55	66	0	0	33	0.92
6613612--6613663	20	2.6	20	93	0	86	36	0	32	30	1.58
6617933--6618085	77	2.0	78	97	1	290	22	10	18	49	1.78
6625250--6625433	89	2.1	90	97	1	352	32	22	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6626670--6626697	2	14.0	2	100	0	56	50	0	0	50	1.00
6628346--6628790	113	3.9	113	90	2	707	26	20	15	37	1.92
6628346--6628797	227	2.0	225	95	1	807	26	20	15	37	1.92
6629551--6629653	54	1.9	54	85	0	143	25	24	13	36	1.92
6638389--6638446	28	2.2	26	84	6	71	60	1	5	32	1.29
6638507--6638577	28	2.6	28	80	10	76	60	2	4	32	1.30
6638335--6638597	131	2.0	131	97	0	499	60	3	6	28	1.40
6639228--6639267	2	20.5	2	94	5	73	50	0	0	50	1.00
6647843--6648026	64	2.9	62	78	11	183	27	16	25	30	1.96
6647907--6647944	19	2.0	20	94	5	69	15	21	31	31	1.94
6647867--6648026	65	2.5	63	84	5	196	28	15	25	31	1.95
6656542--6656719	64	2.8	63	79	10	189	26	17	26	29	1.97
6656560--6656719	65	2.5	65	85	3	207	27	16	26	30	1.97
6656561--6656768	65	3.2	65	79	12	198	27	17	25	29	1.97
6667589--6667746	64	2.5	63	84	5	194	35	19	17	27	1.94
6668258--6668365	31	3.5	31	79	3	103	24	18	22	35	1.96
6668280--6668386	31	3.5	30	79	6	90	24	18	24	32	1.97
6675530--6675572	21	2.0	21	86	0	59	30	27	25	16	1.97
6675552--6675693	71	2.0	71	88	1	214	26	24	30	18	1.98
6676312--6676378	22	3.0	22	100	0	134	19	26	26	26	1.99
6682420--6682462	21	2.0	21	86	0	59	30	27	25	16	1.97
6682442--6682594	68	2.2	68	88	2	218	26	27	28	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6683200--6683266	22	3.0	22	100	0	134	19	26	26	26	1.99
6684648--6684690	14	3.1	14	82	0	59	41	18	13	25	1.88
6685216--6685262	18	2.6	17	78	15	51	36	14	0	48	1.44
6685523--6685571	21	2.3	21	85	0	71	24	28	18	28	1.98
6687909--6687999	45	2.0	46	82	2	112	31	18	21	27	1.97
6695672--6695790	64	1.9	63	80	5	141	37	21	18	22	1.94
6696265--6696592	103	3.2	103	96	0	611	25	12	25	37	1.91
6696602--6696669	23	3.0	23	84	0	91	17	25	26	30	1.97
6698835--6698886	19	2.7	19	96	0	95	26	21	30	21	1.98
6698918--6699005	45	1.9	46	88	2	133	29	18	23	28	1.98
6699025--6699062	20	1.9	20	88	0	58	21	15	31	31	1.94
6705542--6705601	25	2.4	25	97	0	111	35	6	18	40	1.77
6706003--6706168	83	2.0	83	93	0	287	24	13	30	31	1.93
6709648--6709720	36	2.0	36	89	7	112	20	30	31	17	1.96
6713038--6713062	2	12.5	2	100	0	50	48	0	0	52	1.00
6715748--6715819	36	2.0	37	94	5	130	20	30	31	16	1.95
6728835--6728940	53	2.0	53	98	0	203	53	11	4	30	1.57
6730039--6730089	24	2.0	27	88	11	81	27	3	23	45	1.70
6730813--6730857	2	22.5	2	100	0	90	51	0	0	48	1.00
6733467--6733534	2	34.5	2	97	2	129	50	0	0	50	1.00
6734517--6734564	23	2.1	23	84	0	60	37	12	16	33	1.86
6734987--6735049	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6735464--6735549	39	2.2	39	93	0	145	18	13	18	48	1.80
6735808--6735844	18	2.1	18	89	0	56	51	10	5	32	1.60
6736200--6736265	25	2.6	25	80	0	87	42	13	9	34	1.76
6738733--6739225	183	2.7	182	94	0	860	33	17	15	33	1.91
6740727--6740811	3	28.3	3	74	0	71	23	34	5	36	1.79
6740731--6740819	12	7.4	12	85	0	88	21	34	6	37	1.80
6740731--6740822	6	15.3	6	79	0	76	20	34	6	38	1.79
6742280--6743630	199	6.8	199	95	1	2387	32	17	14	35	1.90
6742280--6743630	397	3.4	397	95	0	2426	32	17	14	35	1.90
6743594--6743671	21	3.7	21	77	3	93	24	12	17	44	1.84

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