genome.fa.s1.2.7.7.80.10.50.1000.9.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   

This is table  9  of  126  ( 15035 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)
2977356--2977421	21	3.2	21	72	23	77	62	3	15	19	1.45
2978063--2978114	18	3.0	18	86	10	65	53	0	0	46	1.00
2978926--2978956	16	1.9	16	93	0	53	64	0	0	35	0.94
2979077--2979110	11	3.0	11	91	8	59	70	0	0	29	0.87
2982905--2982961	16	3.4	16	78	7	51	28	0	5	66	1.13
2982914--2982960	25	2.0	23	87	8	67	25	0	4	70	1.05
2985069--2985124	30	1.9	30	85	3	78	44	14	5	35	1.68
2997302--2997340	17	2.3	17	90	0	60	15	12	25	46	1.81
3002704--3002740	16	2.3	16	90	0	56	32	16	18	32	1.93
3013759--3013799	3	13.7	3	100	0	82	68	0	31	0	0.90
3014732--3014769	16	2.4	16	95	0	67	34	13	0	52	1.40
3016559--3016590	3	10.7	3	100	0	64	65	0	0	34	0.93
3018660--3018717	30	2.0	29	86	3	80	51	1	1	44	1.21
3020274--3020404	61	2.2	60	79	6	138	43	14	3	38	1.64
3022851--3022901	12	4.1	12	75	12	50	27	0	3	68	1.07
3031438--3031630	28	6.7	28	68	13	95	34	1	29	34	1.67
3031496--3031928	59	7.4	59	83	5	554	36	1	29	33	1.67
3031495--3031917	177	2.4	176	88	4	622	36	1	29	32	1.67
3031438--3031996	29	19.1	28	65	18	133	35	1	28	34	1.69
3033930--3033988	6	9.8	6	73	14	50	55	1	3	38	1.26
3033945--3033972	14	2.0	14	100	0	56	57	0	7	35	1.26
3034065--3034152	28	3.2	26	80	7	95	36	26	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3034077--3034152	28	2.7	27	84	9	100	32	28	17	21	1.95
3038645--3038700	6	9.2	6	84	11	78	44	1	0	53	1.11
3038635--3038700	12	5.5	11	81	12	60	43	1	1	53	1.19
3040599--3040867	30	9.0	30	82	6	271	37	21	4	36	1.73
3040604--3040867	60	4.4	60	84	5	313	37	21	3	36	1.72
3040589--3040867	90	3.1	90	84	4	325	37	22	4	36	1.74
3040633--3040895	60	4.4	59	84	4	244	38	22	3	35	1.70
3052783--3053545	69	10.9	68	86	6	1019	34	16	19	29	1.94
3052783--3053545	212	3.6	205	87	6	1055	34	16	19	29	1.94
3053108--3053217	31	3.3	31	69	20	96	38	14	18	29	1.90
3053208--3053538	37	9.4	37	65	21	145	34	15	19	30	1.93
3052783--3053548	281	2.7	281	95	0	1363	34	16	19	29	1.94
3053389--3053498	31	3.3	31	69	20	96	38	14	18	29	1.90
3055493--3055570	6	13.3	6	80	15	74	50	0	0	50	1.00
3055493--3055539	17	2.8	17	96	3	87	44	0	0	55	0.99
3058505--3058567	30	2.0	31	84	6	83	39	1	11	47	1.49
3058993--3059024	3	10.7	3	100	0	64	65	0	0	34	0.93
3061101--3061162	30	2.1	30	90	3	99	50	0	1	48	1.10
3062721--3062846	61	2.1	61	82	5	148	45	14	3	37	1.61
3064934--3064976	22	1.9	22	85	4	59	39	4	0	55	1.20
3070148--3070202	26	2.1	26	93	0	92	40	27	16	16	1.89
3070391--3070435	16	2.6	18	82	10	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3071343--3071397	27	2.0	27	82	6	67	47	3	1	47	1.30
3071375--3071442	23	2.9	24	79	14	79	52	1	2	42	1.25
3078627--3078665	17	2.3	17	90	0	60	46	25	12	15	1.81
3089851--3089921	36	2.0	36	91	0	115	59	4	12	23	1.51
3105349--3105373	3	8.3	3	100	0	50	68	0	0	32	0.90
3106582--3106627	25	1.9	25	86	8	69	32	4	6	56	1.45
3114569--3114607	17	2.3	17	90	0	60	15	12	25	46	1.81
3116169--3116214	24	1.9	24	90	0	74	54	2	2	41	1.25
3126141--3126178	14	2.8	14	80	4	51	34	0	5	60	1.19
3127733--3127809	16	4.6	17	77	15	56	44	0	2	53	1.14
3127846--3127879	6	5.7	6	85	0	50	17	0	50	32	1.47
3131298--3131345	24	2.0	24	95	0	87	47	4	2	45	1.33
3140339--3140377	3	13.0	3	100	0	78	66	0	0	33	0.92
3140736--3140769	14	2.4	14	90	0	50	58	2	2	35	1.28
3142270--3142407	46	3.0	45	88	6	197	29	11	10	47	1.74
3142621--3142667	22	2.0	24	88	8	71	48	4	0	46	1.21
3145935--3146054	58	2.1	58	89	6	181	48	17	0	33	1.53
3147140--3147183	23	1.9	23	81	9	54	61	6	20	11	1.52
3149532--3149689	32	5.2	31	73	13	94	50	6	12	31	1.65
3149628--3149701	32	2.3	32	90	2	114	55	5	9	29	1.54
3154414--3154460	12	4.0	12	77	5	51	21	17	14	46	1.83
3154546--3154591	24	1.9	24	81	0	56	26	10	19	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3154656--3154736	40	2.0	41	80	7	94	53	18	9	18	1.72
3154835--3154884	6	8.3	6	78	8	57	40	4	0	56	1.18
3154826--3154884	19	3.3	19	93	6	97	40	3	0	55	1.16
3155664--3155715	3	17.0	3	78	11	52	59	1	1	36	1.19
3155645--3155709	31	2.2	30	83	8	89	56	1	4	36	1.29
3156021--3156083	27	2.3	28	81	10	76	76	0	19	4	0.96
3156746--3156945	30	6.7	30	73	10	135	36	22	3	38	1.70
3156751--3156974	59	3.8	60	81	7	235	35	23	2	38	1.69
3156817--3156975	30	5.4	29	74	9	99	32	26	2	38	1.70
3161720--3161797	37	2.2	34	80	15	86	29	5	3	61	1.35
3164169--3164235	32	2.0	34	88	11	102	26	11	5	55	1.59
3166889--3166924	6	5.8	6	90	3	54	38	0	61	0	0.96
3166893--3166935	12	3.6	12	87	0	59	44	0	55	0	0.99
3171205--3171307	47	2.2	48	87	3	156	48	3	7	39	1.50
3182515--3182544	15	2.1	14	93	6	51	56	3	0	40	1.16
3183305--3183362	6	9.5	6	84	1	53	50	0	50	0	1.00
3183305--3183352	24	2.0	25	91	4	80	45	0	54	0	0.99
3183670--3183712	20	2.2	20	82	0	50	25	2	13	58	1.48
3188243--3188288	15	3.1	15	90	0	74	30	10	8	50	1.68
3195667--3195765	48	2.1	48	94	0	171	46	7	8	38	1.61
3200800--3200879	33	2.4	33	91	0	124	48	18	6	26	1.71
3200820--3200891	33	2.2	33	82	0	81	50	23	5	20	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201097--3201142	22	2.0	23	84	12	60	41	8	15	34	1.78
3201158--3201228	24	3.0	23	84	12	74	54	12	9	22	1.67
3201174--3201228	6	9.2	6	81	0	65	54	12	10	21	1.68
3201170--3201228	12	4.9	12	82	0	73	54	11	10	23	1.67
3203508--3203536	13	2.1	14	93	6	51	58	6	0	34	1.25
3207904--3207969	31	2.1	31	88	0	96	36	10	7	45	1.67
3212291--3212336	16	2.9	17	75	15	53	52	4	0	43	1.21
3212718--3212767	21	2.4	20	80	9	55	22	4	4	70	1.21
3217934--3217977	21	2.1	21	100	0	88	47	20	18	13	1.82
3223960--3224015	19	2.9	18	79	10	58	32	5	3	58	1.37
3235873--3235937	30	2.1	31	86	13	91	21	13	18	46	1.84
3236082--3236143	31	2.0	31	84	6	81	35	14	11	38	1.82
3235996--3236277	141	2.0	141	96	0	519	32	13	17	36	1.89
3236757--3236869	57	2.0	57	96	0	208	41	15	21	21	1.90
3248054--3248085	13	2.5	13	100	0	64	34	0	0	65	0.93
3255464--3255496	6	5.8	6	89	10	52	0	15	0	84	0.61
3255466--3255496	11	2.9	11	95	4	55	0	12	0	87	0.55
3255464--3255496	17	2.0	16	94	5	57	0	15	0	84	0.61
3255400--3255555	75	2.1	76	96	2	287	12	21	4	61	1.48
3255459--3255632	64	3.0	55	80	18	210	12	22	6	58	1.58
3255583--3255612	5	6.0	5	100	0	60	0	20	0	80	0.72
3255772--3255888	58	2.1	58	88	3	175	41	4	25	29	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3266416--3266502	31	2.9	30	77	3	95	35	12	13	37	1.83
3279078--3279117	21	1.9	21	89	0	62	25	12	10	52	1.70
3282354--3282432	38	2.1	38	100	0	158	39	2	12	45	1.56
3284971--3285025	17	3.4	16	79	18	53	40	1	1	56	1.21
3285206--3285243	3	12.7	3	100	0	76	65	0	0	34	0.93
3295399--3295441	17	2.4	18	84	7	52	62	2	4	30	1.28
3303432--3303491	29	2.1	29	96	0	111	25	15	10	50	1.74
3305352--3305417	27	2.4	29	77	10	75	45	10	13	30	1.77
3312748--3312776	2	14.5	2	100	0	58	48	0	0	51	1.00
3316555--3316656	51	2.0	51	98	0	195	27	17	20	34	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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126