genome.fa.s8620.2.7.7.80.10.50.1000.55.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  55  of  64  ( 7674 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)
11109038--11109093	20	2.8	20	88	0	85	35	23	19	21	1.96
11109138--11109204	20	3.3	20	85	0	80	17	14	23	43	1.87
11109175--11109214	20	2.0	20	85	0	53	15	12	22	50	1.77
11111077--11111203	20	6.7	20	82	10	167	40	22	19	18	1.92
11111077--11111220	20	7.5	20	81	10	122	40	21	18	19	1.91
11111248--11111379	20	6.6	20	96	0	228	20	20	20	38	1.94
11111866--11111907	21	2.2	19	87	12	59	21	35	19	23	1.96
11113322--11113357	14	2.6	14	90	0	54	30	0	22	47	1.52
11113463--11113558	33	2.8	33	88	3	129	14	22	20	41	1.89
11113530--11113614	20	4.2	20	83	3	109	17	21	23	37	1.94
11115425--11115471	24	2.0	24	95	0	85	34	17	21	27	1.95
11115429--11115480	24	2.2	24	85	0	68	36	19	19	25	1.95
11116322--11116367	20	2.3	20	92	7	76	21	19	21	36	1.95
11116363--11116409	21	2.2	21	80	0	58	38	14	27	19	1.91
11118457--11118495	16	2.4	16	86	0	51	43	12	20	23	1.86
11118817--11118858	20	2.1	20	95	0	75	21	14	11	52	1.73
11122138--11122230	46	2.0	46	95	4	170	24	12	18	44	1.85
11124279--11124331	21	2.5	20	85	8	70	47	11	15	26	1.79
11124074--11124531	221	2.1	220	90	2	711	32	14	14	38	1.86
11124299--11125448	200	5.8	200	90	2	1694	31	14	13	40	1.85
11124299--11125448	399	2.9	397	89	3	1701	31	14	13	40	1.85
11129180--11129220	21	1.9	22	90	5	66	24	36	21	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11129998--11130104	31	3.4	32	76	3	101	36	16	16	29	1.92
11134970--11135654	183	3.7	183	80	7	755	28	14	13	43	1.83
11135372--11135422	20	2.5	20	96	0	93	25	13	15	45	1.83
11135222--11135580	199	1.8	199	87	2	533	28	14	12	44	1.82
11141628--11141685	18	3.2	18	100	0	116	37	5	10	46	1.60
11143410--11143467	26	2.2	26	100	0	116	31	6	34	27	1.83
11155663--11155688	13	2.0	13	100	0	52	30	23	30	15	1.95
11159305--11159366	21	3.0	21	78	4	63	50	24	1	24	1.59
11159341--11159374	14	2.4	14	90	0	50	44	26	0	29	1.55
11159447--11159502	21	2.7	21	82	0	76	46	33	0	19	1.50
11159431--11159500	28	2.5	28	88	0	104	44	32	0	22	1.53
11159447--11159502	7	8.0	7	83	0	67	46	33	0	19	1.50
11162113--11162145	17	1.9	17	100	0	66	24	15	30	30	1.95
11162953--11163003	14	3.7	14	82	12	70	25	17	17	39	1.92
11162953--11163024	13	5.3	13	76	20	60	27	16	16	38	1.90
11162953--11163024	20	3.5	21	77	5	76	27	16	16	38	1.90
11163594--11163806	52	4.1	51	83	4	232	12	19	20	47	1.81
11163594--11163806	104	2.0	104	86	3	295	12	19	20	47	1.81
11164557--11164622	29	2.3	29	91	0	105	33	13	21	31	1.92
11167490--11167525	2	18.0	2	100	0	72	50	0	0	50	1.00
11167999--11168057	3	19.3	3	89	10	93	67	0	1	30	1.00
11168079--11168137	20	3.1	18	84	15	75	77	0	6	15	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11168082--11168140	13	4.5	13	72	16	50	79	0	5	15	0.89
11169156--11169206	19	2.6	20	93	3	86	45	5	13	35	1.68
11169366--11169420	22	2.3	25	78	18	80	27	18	23	30	1.97
11169374--11169427	22	2.5	22	96	0	99	27	20	24	27	1.99
11170080--11170131	24	2.2	24	82	6	61	44	9	19	26	1.81
11171164--11171217	19	2.9	18	81	10	65	74	0	3	22	0.98
11171238--11171634	110	3.6	108	87	5	532	44	6	4	45	1.49
11171238--11171648	73	5.6	72	86	6	513	44	6	4	45	1.48
11171238--11171660	37	11.4	36	85	8	489	43	6	4	45	1.49
11171673--11171724	2	27.5	2	78	18	58	53	1	0	44	1.11
11171684--11171732	16	3.2	16	85	8	66	61	0	0	38	0.96
11171696--11171733	20	1.9	20	88	0	58	65	0	0	34	0.93
11172394--11172957	85	6.6	85	90	0	842	25	19	19	35	1.95
11174182--11174392	84	2.5	85	86	2	293	32	17	18	31	1.94
11174314--11174519	99	2.1	98	88	1	306	33	16	16	33	1.91
11178221--11178257	17	2.1	18	85	14	51	72	0	2	24	0.97
11178277--11178325	20	2.4	21	90	10	75	79	2	4	14	0.97
11179467--11179519	9	5.7	9	82	8	61	71	0	1	26	0.96
11179467--11179523	19	3.1	18	82	7	69	70	0	1	28	0.98
11179528--11179575	24	2.0	24	87	4	69	47	2	0	50	1.12
11179519--11179910	37	10.6	35	83	8	385	45	5	3	46	1.42
11179519--11179909	74	5.3	71	84	9	448	45	5	3	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11179899--11179941	13	3.0	14	84	15	61	51	11	0	37	1.39
11179900--11179940	14	2.9	14	86	13	57	53	9	0	36	1.34
11180617--11180698	20	4.1	20	71	6	58	31	28	12	28	1.92
11180897--11180964	20	3.4	20	71	4	57	23	11	29	35	1.90
11188856--11189416	105	5.3	105	95	1	966	22	18	25	33	1.97
11189634--11189664	1	31.0	1	100	0	62	0	0	0	100	0.00
11190229--11190253	1	25.0	1	100	0	50	0	0	0	100	0.00
11201970--11202016	12	4.4	11	76	15	53	57	0	0	42	0.98
11201970--11202016	20	2.2	23	88	11	73	57	0	0	42	0.98
11204317--11204369	26	2.0	26	85	7	72	39	22	11	26	1.88
11206062--11206091	2	15.0	2	100	0	60	50	0	0	50	1.00
11206139--11206171	16	2.1	16	88	5	50	45	6	3	45	1.43
11223662--11223729	32	2.1	32	94	0	118	52	5	23	17	1.66
11225195--11225236	19	2.2	19	91	0	66	50	14	11	23	1.76
11225202--11225255	19	2.8	19	82	0	63	48	14	12	24	1.79
11226889--11226922	14	2.4	14	90	9	52	26	17	29	26	1.98
11227795--11227823	2	14.5	2	100	0	58	51	0	0	48	1.00
11232287--11232315	2	15.0	2	92	7	51	51	0	0	48	1.00
11244498--11244528	2	15.5	2	100	0	62	0	48	0	51	1.00
11246968--11247012	2	22.5	2	100	0	90	48	0	0	51	1.00
11250015--11251267	314	4.0	314	96	2	2303	36	19	15	28	1.92
11253064--11253102	21	1.9	20	89	5	60	71	5	2	20	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11260406--11260491	32	2.8	30	76	8	93	40	11	9	38	1.74
11261893--11261933	20	2.0	20	95	0	73	31	19	19	29	1.96
11269718--11269791	31	2.5	28	76	16	78	32	13	5	48	1.65
11285187--11285264	24	3.2	24	90	3	122	39	15	17	26	1.90
11289673--11289785	60	1.9	60	85	3	147	35	15	16	31	1.91
11290811--11290940	60	2.2	60	87	0	179	30	19	6	44	1.75
11290824--11290968	60	2.4	60	82	0	155	30	22	5	42	1.76
11291835--11291987	60	2.6	59	82	5	182	31	18	5	44	1.72
11292141--11292235	31	3.2	29	66	8	75	41	3	25	30	1.71
11292137--11292251	60	1.9	60	91	3	187	42	3	23	30	1.71
11292137--11292309	60	2.9	58	81	12	183	44	3	20	31	1.68
11294303--11294353	2	25.5	2	100	0	102	49	0	0	50	1.00
11295267--11295291	2	12.5	2	100	0	50	52	0	0	48	1.00
11295865--11295906	19	2.2	19	86	0	57	35	19	11	33	1.88
11300137--11300442	117	2.6	118	91	0	488	25	20	14	38	1.91
11300339--11300538	96	2.1	96	87	3	287	26	20	14	38	1.91
11300418--11300460	17	2.6	17	92	7	72	20	25	4	48	1.69
11300663--11300986	119	2.7	119	79	3	384	24	22	16	36	1.94
11303500--11303543	9	4.8	9	88	5	52	0	18	0	81	0.68
11303511--11303608	18	5.5	18	74	13	69	9	12	0	78	0.96
11303511--11303576	9	7.3	9	77	6	71	6	10	0	83	0.81
11303511--11303587	27	2.8	26	78	9	73	7	10	0	81	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11324308--11324389	42	2.0	42	85	0	110	25	20	15	37	1.93
11327026--11327072	18	2.6	18	93	0	76	36	21	14	27	1.93
11330532--11330588	12	4.7	12	77	2	51	0	10	42	47	1.38
11330529--11330588	24	2.5	24	78	10	68	0	10	40	50	1.36
11331662--11331688	14	1.9	14	100	0	54	22	3	0	74	0.98
11332238--11332275	20	1.9	20	100	0	76	18	42	10	28	1.83
11335260--11335598	169	2.0	170	98	0	662	37	10	5	47	1.60
11336120--11336152	16	2.2	15	89	10	50	27	3	21	48	1.64
11338862--11338913	20	2.6	20	96	0	95	38	26	13	21	1.90
11338903--11339001	21	4.8	20	72	6	72	36	23	19	21	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   63   64