genome.fa.s190.2.7.7.80.10.50.1000.13.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  13  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)
2980589--2980625	7	5.1	7	96	3	65	56	0	0	43	0.99
2980600--2980645	14	3.1	16	84	9	53	52	4	0	43	1.21
2981785--2981818	17	2.1	17	88	5	52	61	0	0	38	0.96
2981965--2982462	256	1.9	258	89	7	778	38	19	14	28	1.90
2986958--2987022	2	34.5	2	88	11	102	53	0	0	46	1.00
2988998--2989422	112	3.8	112	93	0	715	24	18	23	34	1.96
2990455--2990489	18	1.9	18	88	0	52	22	28	8	40	1.84
2990501--2990534	8	4.6	7	92	7	50	0	11	5	82	0.83
2990503--2990532	8	3.9	8	95	4	53	0	13	6	80	0.91
2990501--2990534	15	2.3	15	85	14	52	0	11	5	82	0.83
3001168--3001249	23	3.6	23	91	0	137	28	25	28	18	1.98
3001168--3001259	46	2.0	46	91	0	148	31	22	25	20	1.98
3004083--3004130	20	2.4	20	100	0	96	14	25	0	60	1.34
3006217--3006275	23	2.6	23	94	0	100	30	27	25	16	1.97
3007876--3007920	21	2.1	21	83	0	54	13	24	31	31	1.93
3015370--3015419	20	2.5	20	76	0	64	34	8	6	52	1.55
3015504--3015550	10	4.7	10	78	17	53	44	0	0	55	0.99
3017692--3017735	21	2.1	21	87	4	63	34	13	4	47	1.63
3022798--3022842	23	2.0	23	86	0	63	24	24	26	24	2.00
3022818--3023124	149	2.1	149	95	1	553	34	21	17	26	1.95
3024022--3024056	18	1.9	18	88	11	54	22	17	5	54	1.64
3024548--3024673	65	1.9	66	91	4	211	26	20	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3027414--3027442	15	1.9	15	100	0	58	75	3	6	13	1.13
3042445--3042497	17	3.1	16	76	12	52	37	0	1	60	1.08
3043166--3043205	19	2.0	20	86	13	57	30	0	2	67	1.04
3046408--3046434	11	2.5	11	100	0	54	29	7	0	62	1.22
3046751--3046803	3	17.7	3	84	0	70	32	35	1	30	1.69
3048667--3048732	34	2.0	33	82	8	80	62	4	1	31	1.25
3049000--3049045	22	2.1	22	100	0	92	23	0	50	26	1.50
3049005--3049058	22	2.4	22	90	3	81	25	0	48	25	1.52
3049823--3049861	15	2.4	17	83	8	55	56	0	0	43	0.99
3049817--3049861	16	2.8	16	80	10	56	57	0	0	42	0.98
3054902--3054940	2	19.5	2	94	0	69	48	0	0	51	1.00
3054960--3054993	4	8.5	4	100	0	68	26	0	23	50	1.50
3054976--3055101	44	3.0	42	82	13	152	38	9	16	35	1.81
3063937--3064013	38	2.0	38	100	0	154	48	15	15	20	1.81
3076560--3076594	16	2.1	17	94	5	63	31	8	25	34	1.86
3077332--3077364	15	2.1	16	88	5	50	51	15	24	9	1.72
3081903--3081936	15	2.3	15	100	0	68	14	5	11	67	1.39
3081910--3081943	15	2.3	15	89	0	50	17	5	11	64	1.45
3082389--3082442	17	3.3	16	79	10	56	16	27	33	22	1.95
3087503--3087590	3	29.7	3	97	2	169	0	32	0	67	0.91
3089454--3089492	20	1.9	21	89	5	62	69	0	0	30	0.89
3089452--3089498	20	2.3	20	79	10	60	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3092174--3092215	22	1.9	22	85	9	59	42	2	4	50	1.36
3094132--3095692	3	535.0	3	77	14	1436	0	38	0	61	0.99
3097070--3097116	22	2.2	21	84	3	58	31	21	8	38	1.83
3108885--3108910	2	13.0	2	100	0	52	50	0	0	50	1.00
3110864--3110937	27	2.6	27	79	10	78	36	28	17	17	1.93
3117893--3118020	29	4.4	27	74	15	80	36	3	1	57	1.26
3117933--3118173	29	8.0	28	72	17	128	39	4	0	54	1.28
3118079--3118197	29	4.1	29	86	6	143	41	5	0	53	1.23
3118079--3118173	29	3.3	28	91	4	145	38	4	0	56	1.19
3118187--3118229	18	2.5	17	81	7	52	48	4	2	44	1.36
3118220--3118286	32	2.0	33	85	5	91	58	0	7	34	1.26
3118242--3118286	17	2.6	17	75	0	54	57	0	11	31	1.33
3118367--3118460	28	3.2	29	70	22	79	45	2	7	44	1.43
3118472--3118582	31	3.7	28	73	18	82	61	0	4	33	1.22
3118472--3118542	31	2.3	31	92	7	119	67	1	4	26	1.17
3121255--3121283	2	14.5	2	100	0	58	48	0	0	51	1.00
3125335--3125397	11	5.9	11	69	14	51	57	3	1	38	1.24
3134517--3134614	3	32.7	3	95	0	178	64	0	1	34	1.01
3134933--3135571	113	5.6	113	91	0	981	29	18	13	38	1.89
3135402--3135446	23	1.9	23	82	13	56	15	24	6	53	1.66
3136187--3136616	84	5.1	84	92	1	700	36	21	13	28	1.91
3137718--3137746	14	2.0	15	93	6	51	0	24	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3145008--3145039	15	2.2	15	94	5	57	43	3	6	46	1.44
3148374--3148424	18	2.9	17	75	16	50	72	1	0	25	0.95
3150571--3150638	3	22.7	3	90	0	109	61	0	1	36	1.05
3151625--3151655	2	15.5	2	93	0	53	54	0	0	45	0.99
3159854--3160000	21	6.9	21	74	3	105	23	14	24	37	1.93
3160650--3160683	16	2.1	17	88	5	52	38	0	17	44	1.49
3162805--3162870	27	2.5	26	78	11	71	53	1	0	45	1.09
3162780--3162933	24	6.2	24	65	23	61	46	2	0	50	1.20
3163023--3163082	33	1.9	32	86	10	88	48	1	1	48	1.21
3163950--3164022	31	2.4	31	88	0	101	24	12	10	52	1.71
3165255--3165279	12	2.1	12	100	0	50	24	20	0	56	1.43
3168815--3168933	57	2.1	57	100	0	238	56	6	8	28	1.55
3171555--3171698	71	2.0	71	90	0	225	42	13	17	26	1.87
3173665--3173770	24	4.5	24	80	7	110	50	16	11	22	1.76
3176206--3176247	13	3.2	13	86	0	57	19	21	40	19	1.92
3178326--3178410	12	7.3	11	71	17	55	50	16	14	18	1.78
3178320--3178410	47	1.9	48	84	10	125	50	16	14	18	1.78
3178327--3178413	24	3.7	23	82	3	102	49	17	13	19	1.79
3178316--3178427	24	4.7	26	73	14	98	49	16	15	19	1.80
3180845--3180889	13	3.5	13	81	6	56	17	22	42	17	1.89
3180869--3180911	18	2.4	18	88	7	61	16	18	46	18	1.84
3183111--3183178	22	3.0	22	75	14	59	47	23	0	29	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183119--3183178	23	2.6	24	84	7	81	48	26	0	25	1.52
3183786--3183857	31	2.3	31	84	11	94	40	6	11	41	1.67
3184652--3184679	14	2.0	14	100	0	56	50	7	7	35	1.57
3184632--3184660	2	14.5	2	100	0	58	51	0	0	48	1.00
3185962--3185993	15	2.1	15	100	0	64	43	18	18	18	1.88
3194864--3194896	16	2.1	16	94	0	57	33	27	6	33	1.81
3196380--3196458	33	2.4	33	81	12	99	13	12	37	35	1.83
3200134--3200172	20	2.0	19	90	5	60	46	0	12	41	1.42
3208736--3208788	2	26.5	2	88	0	79	0	43	0	56	0.99
3208736--3208791	14	4.0	14	92	0	94	0	42	0	57	0.99
3209377--3209404	2	14.0	2	100	0	56	50	0	0	50	1.00
3211013--3211061	5	9.8	5	93	0	62	6	40	36	16	1.73
3211059--3211125	6	11.2	6	96	0	107	4	16	49	29	1.65
3211400--3211454	22	2.5	22	75	0	56	29	9	23	38	1.85
3216980--3217028	5	9.8	5	93	0	62	6	40	36	16	1.73
3217026--3217086	6	10.2	6	96	0	95	4	16	49	29	1.66
3219522--3219572	24	2.2	23	80	16	61	31	11	3	52	1.56
3219530--3219576	24	2.0	24	95	0	85	34	12	4	48	1.61
3220342--3221078	48	15.4	48	65	13	268	22	47	3	26	1.69
3220391--3220438	21	2.3	21	85	0	60	22	62	0	14	1.32
3220345--3220460	60	1.9	60	87	0	169	23	52	4	19	1.64
3220505--3220650	42	3.2	42	68	20	121	23	45	4	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3220403--3220757	96	3.7	96	81	0	343	21	45	4	27	1.71
3220711--3220808	45	2.2	45	77	13	103	18	47	4	29	1.67
3220807--3220850	6	7.3	6	86	0	52	27	59	0	13	1.35
3220787--3220856	30	2.3	30	80	9	88	22	62	0	14	1.31
3220831--3221081	90	2.7	91	78	4	270	22	46	3	27	1.68
3220816--3221411	255	2.3	259	84	5	761	24	45	3	27	1.68
3221089--3221226	42	3.1	42	71	11	114	26	44	2	26	1.65
3221722--3221832	48	2.3	49	87	3	154	20	37	9	31	1.86
3225493--3225535	21	2.0	21	86	0	59	30	27	25	16	1.97
3225515--3225668	70	2.2	68	85	5	195	31	25	27	14	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