genome.fa.s8242.2.7.7.80.10.50.1000.52.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  52  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)
12397970--12398871	248	3.6	248	92	0	1468	29	24	20	25	1.99
12399478--12399537	25	2.4	25	91	0	93	48	0	8	43	1.33
12399503--12399697	38	5.3	37	78	10	204	44	4	7	44	1.50
12399746--12399862	36	3.1	37	79	11	116	44	1	5	47	1.37
12399718--12399865	37	3.9	37	77	14	124	46	2	5	45	1.37
12402549--12402586	19	2.0	19	100	0	76	52	5	5	36	1.47
12411041--12411353	152	2.0	155	87	3	454	36	20	11	32	1.88
12415314--12415358	21	2.1	21	84	8	56	60	0	0	40	0.97
12415409--12415454	18	2.8	16	78	15	58	50	2	6	41	1.40
12433666--12434051	188	2.0	194	93	6	678	41	8	11	38	1.72
12434350--12434390	21	2.0	21	95	0	73	36	12	31	19	1.89
12442057--12442108	20	2.5	20	79	11	52	28	25	11	34	1.91
12444222--12444253	16	2.1	16	94	5	57	37	0	15	46	1.46
12449838--12449909	30	2.4	30	90	0	108	26	19	22	31	1.97
12451739--12451773	5	7.0	5	96	0	52	5	20	14	60	1.54
12457013--12457075	21	3.0	21	84	6	76	15	22	34	26	1.94
12457361--12457392	13	2.4	14	85	15	50	37	6	12	43	1.68
12457365--12457393	13	2.3	13	94	5	51	37	6	10	44	1.65
12459711--12459771	23	2.7	23	80	7	70	26	19	31	22	1.98
12459900--12459939	17	2.4	17	100	0	80	45	5	5	45	1.47
12463607--12463648	21	2.0	20	86	4	57	38	2	7	52	1.42
12465630--12465688	21	2.9	21	94	2	102	10	23	35	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12466004--12466031	6	4.7	6	100	0	56	14	14	17	53	1.73
12467889--12467938	25	2.0	25	88	0	73	32	36	6	26	1.81
12470604--12470711	36	3.0	36	90	0	162	32	12	9	45	1.74
12474334--12474398	30	2.2	30	88	0	94	27	30	24	16	1.97
12474482--12474519	19	2.0	19	89	0	58	31	26	23	18	1.97
12481370--12481453	23	3.8	22	79	6	89	21	29	26	22	1.99
12483038--12483077	18	2.2	18	90	0	62	47	22	30	0	1.52
12485010--12485056	21	2.2	21	81	7	60	48	0	2	48	1.13
12486244--12486277	6	6.0	6	86	13	54	47	0	0	52	1.00
12496799--12496858	21	3.2	21	60	30	53	31	5	18	45	1.71
12496791--12496899	35	3.0	36	87	5	166	30	5	18	45	1.72
12499821--12499869	19	2.6	19	100	0	98	28	16	32	22	1.95
12499924--12499981	20	2.6	22	89	10	84	31	20	22	25	1.98
12503885--12504025	64	2.2	63	81	7	160	31	17	24	26	1.97
12507677--12507785	35	3.0	37	90	8	179	28	4	21	45	1.71
12514159--12514224	3	21.3	3	80	20	50	66	0	0	33	0.92
12514158--12514224	10	6.8	10	80	19	63	67	0	0	32	0.91
12514159--12514223	20	3.3	19	79	16	71	66	0	0	33	0.92
12514158--12514224	35	1.9	35	85	11	93	67	0	0	32	0.91
12514167--12514225	5	12.4	5	91	8	65	66	0	0	33	0.92
12514609--12514694	33	2.5	34	87	7	122	32	9	17	40	1.81
12514648--12514799	67	2.2	68	83	8	184	36	11	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12514748--12515072	36	9.1	36	80	8	362	40	13	18	27	1.88
12514748--12515072	73	4.6	73	78	9	375	40	13	18	27	1.88
12514783--12515044	138	1.9	138	87	1	382	40	12	18	28	1.87
12514690--12515072	174	2.2	176	86	4	533	40	12	19	27	1.88
12520683--12520743	3	21.3	3	75	21	60	65	0	0	34	0.93
12520683--12520743	32	1.9	31	83	9	79	65	0	0	34	0.93
12525373--12525490	53	2.2	53	84	1	148	35	20	16	27	1.94
12534735--12534827	21	4.6	20	78	4	96	38	18	24	18	1.92
12534732--12534827	41	2.3	41	98	0	183	39	17	23	18	1.92
12534735--12534827	20	4.6	20	78	4	96	38	18	24	18	1.92
12534754--12534888	41	3.3	41	81	6	123	37	20	21	20	1.94
12534816--12534910	20	4.7	20	80	2	91	34	24	17	23	1.96
12535099--12535141	22	2.0	22	95	0	77	20	44	16	18	1.87
12535405--12535442	20	1.9	20	88	0	58	13	15	21	50	1.78
12536761--12536805	18	2.5	18	85	0	54	28	40	15	15	1.88
12537315--12537410	19	5.6	18	69	25	66	46	22	18	11	1.81
12537331--12537388	14	3.9	14	79	16	71	48	25	17	8	1.75
12537315--12537405	32	2.8	32	93	3	146	48	23	17	10	1.79
12537424--12537479	14	3.7	14	78	17	67	8	16	25	50	1.74
12537417--12537495	32	2.4	33	93	2	142	11	18	22	46	1.81
12537436--12537553	20	6.4	19	77	11	95	13	20	24	41	1.88
12539620--12539717	20	4.9	20	97	0	178	16	23	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12540777--12540830	24	2.2	24	90	0	81	24	16	20	38	1.92
12541005--12541029	12	2.1	12	100	0	50	72	0	28	0	0.86
12543320--12543478	66	2.4	66	93	2	275	43	20	21	15	1.88
12543478--12543520	20	2.2	20	87	4	61	16	18	23	41	1.89
12543320--12543485	33	5.0	33	85	7	221	42	19	21	16	1.89
12543506--12543539	14	2.4	14	85	0	50	8	23	20	47	1.78
12543661--12543697	14	2.6	14	91	0	65	45	24	0	29	1.53
12545094--12545177	42	2.0	42	83	0	105	23	15	39	21	1.92
12547180--12547323	20	7.9	19	69	18	83	42	22	22	11	1.86
12547205--12547303	33	3.0	33	89	1	144	39	26	23	11	1.88
12547323--12547366	19	2.3	19	88	0	61	11	15	25	47	1.79
12547921--12548014	20	4.7	20	77	2	80	24	17	24	34	1.96
12547942--12548076	41	3.3	41	80	4	121	20	20	20	38	1.94
12548003--12548095	21	4.6	20	79	4	105	18	23	18	39	1.92
12548003--12548098	41	2.3	41	96	0	174	18	22	17	40	1.91
12555500--12555525	2	13.0	2	100	0	52	50	0	0	50	1.00
12557121--12557246	36	3.4	36	83	12	175	42	11	5	41	1.64
12557213--12557294	24	3.5	24	91	5	132	43	7	4	43	1.53
12557176--12557336	84	1.9	83	91	3	261	40	10	4	43	1.61
12557301--12557357	20	2.7	21	74	17	55	40	14	3	42	1.62
12557181--12557370	83	2.3	83	83	7	226	41	11	4	43	1.59
12557907--12557936	15	2.0	15	93	0	51	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12565069--12565129	16	3.8	16	88	0	95	59	21	11	8	1.58
12569462--12569538	19	3.8	20	78	13	68	16	25	32	24	1.96
12575807--12575849	14	3.1	14	86	0	68	48	25	13	11	1.77
12579557--12579748	42	4.6	43	76	8	180	42	16	21	19	1.89
12579551--12579739	82	2.3	84	83	7	233	44	16	20	19	1.87
12579485--12581178	565	3.0	564	86	7	2130	39	16	17	25	1.91
12580701--12580800	48	2.0	48	86	5	137	49	13	18	20	1.80
12581137--12581196	21	2.9	20	76	16	68	70	3	3	23	1.18
12584512--12584937	43	9.9	43	84	4	450	31	17	23	26	1.97
12584536--12584938	216	1.9	216	86	4	589	31	17	23	27	1.97
12588833--12589005	82	2.1	83	79	13	180	35	17	16	30	1.92
12592316--12592360	22	2.0	21	87	8	63	53	11	17	17	1.72
12592533--12592700	77	2.2	77	85	2	230	32	10	21	35	1.88
12592807--12593026	77	2.9	77	84	1	271	39	9	15	35	1.80
12593102--12593139	20	1.9	20	94	0	67	39	2	10	47	1.52
12593190--12593257	20	3.4	20	89	4	93	30	16	8	44	1.78
12593392--12593714	100	3.2	100	77	7	298	37	11	14	36	1.83
12594173--12594408	94	2.4	97	81	8	248	37	13	14	33	1.86
12594263--12594447	102	1.8	102	84	4	259	36	10	13	39	1.79
12593433--12594899	734	2.0	731	89	2	2237	37	14	10	37	1.81
12598535--12598626	46	2.0	46	95	0	166	45	9	9	34	1.70
12600310--12600527	42	5.2	41	67	14	104	33	21	27	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12608085--12608207	60	2.0	63	85	4	171	28	23	8	39	1.85
12610548--12610609	20	3.2	19	84	11	81	0	12	6	80	0.89
12611449--12611499	16	3.0	17	80	11	68	25	31	21	21	1.98
12614409--12614450	19	2.2	19	86	0	57	19	30	0	50	1.48
12616055--12616127	28	2.6	28	91	0	119	36	31	17	13	1.89
12619228--12619271	22	2.0	22	90	0	70	29	11	2	56	1.46
12620302--12620762	46	10.0	46	94	0	787	21	22	12	43	1.86
12623866--12623907	20	2.1	20	86	8	59	30	0	2	66	1.04
12625353--12625434	33	2.5	33	78	4	94	36	13	20	29	1.91
12627397--12627440	3	14.7	3	85	0	52	59	6	0	34	1.24

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