genome.fa.s3.2.7.7.80.10.50.1000.7.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   

This is table  7  of  171  ( 20472 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)
2871465--2871683	55	3.9	55	81	8	237	48	11	9	29	1.71
2871514--2871967	89	5.0	89	72	11	298	48	14	8	28	1.73
2871683--2871980	89	3.3	90	81	3	321	47	16	7	28	1.74
2873555--2873584	5	6.0	5	100	0	60	0	20	40	40	1.52
2874060--2874122	16	3.9	16	75	8	65	52	1	15	30	1.53
2874060--2874138	32	2.5	32	79	8	81	50	1	17	30	1.54
2874298--2874398	21	4.9	21	66	9	55	50	0	2	45	1.23
2874352--2874441	37	2.4	36	82	10	101	46	1	0	52	1.07
2874352--2874448	38	2.6	37	83	9	108	46	1	0	52	1.07
2874353--2874448	26	3.7	27	74	13	85	45	1	0	53	1.07
2876828--2876854	3	9.0	3	100	0	54	66	0	0	33	0.92
2882369--2882408	21	1.9	21	84	0	53	17	70	7	5	1.30
2891548--2891579	15	2.0	17	88	11	50	28	0	0	71	0.86
2895597--2895649	26	2.1	25	86	10	72	45	3	3	47	1.39
2914547--2914939	210	1.9	210	92	2	664	33	13	10	42	1.79
2915733--2915797	11	6.4	10	73	16	53	7	30	0	61	1.24
2915733--2915798	31	2.2	31	94	2	116	9	30	0	60	1.27
2918173--2918205	3	11.3	3	87	6	50	36	0	3	60	1.12
2925197--2925297	38	2.6	40	71	10	100	21	19	28	29	1.98
2925928--2926568	319	2.0	319	97	0	1219	31	10	19	38	1.86
2926769--2926816	11	4.3	11	82	15	62	62	0	2	35	1.07
2928924--2928951	14	2.0	14	100	0	56	35	14	7	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2941812--2941868	3	19.0	3	96	0	105	0	33	1	64	1.04
2942358--2942411	26	2.1	26	82	6	65	44	7	1	46	1.42
2966578--2966860	153	1.9	152	85	5	401	39	20	13	26	1.90
2981928--2981964	3	12.0	3	94	5	65	0	32	0	67	0.91
2993582--2993628	22	2.1	23	81	14	55	27	0	0	72	0.85
2993583--2993627	15	3.0	16	81	12	60	28	0	0	71	0.87
3013305--3013353	15	3.4	15	70	30	52	14	12	14	59	1.62
3015952--3016054	37	2.7	38	72	6	91	23	19	26	31	1.98
3020014--3020069	24	2.3	25	78	9	62	46	14	8	30	1.75
3022195--3022234	3	13.3	3	89	0	53	60	0	7	32	1.25
3028411--3028443	6	5.5	6	100	0	66	0	0	48	51	1.00
3028740--3028781	21	2.0	21	90	0	66	38	0	0	61	0.96
3028738--3028806	22	3.2	22	85	4	86	40	0	0	59	0.97
3033995--3034051	30	2.0	29	86	10	82	19	15	10	54	1.70
3034545--3034593	16	3.0	16	79	8	55	67	4	2	26	1.19
3034558--3034609	19	2.7	20	82	11	63	69	1	0	28	0.99
3034725--3034787	12	5.1	12	72	12	56	69	1	6	22	1.19
3043030--3043069	2	21.0	2	90	10	66	52	0	0	47	1.00
3045637--3046104	246	1.9	246	92	0	785	32	17	16	34	1.92
3046384--3046511	65	2.0	65	93	3	222	38	15	15	30	1.89
3050354--3050391	20	1.9	20	88	0	58	42	7	5	44	1.56
3057045--3057247	108	1.9	108	85	5	288	39	7	9	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082264--3082316	22	2.5	22	76	11	58	60	1	0	37	1.08
3082378--3082559	99	1.8	100	89	1	285	23	10	10	55	1.65
3082594--3082638	3	15.0	3	100	0	90	66	0	0	33	0.92
3090054--3090100	24	2.0	24	87	4	69	27	8	4	59	1.45
3090095--3090163	30	2.3	30	82	7	95	24	17	10	47	1.78
3091084--3091183	31	3.4	30	70	23	86	48	11	16	25	1.78
3091057--3091183	58	2.2	59	87	8	179	47	11	15	25	1.80
3093116--3093174	9	7.1	9	71	28	51	49	0	0	50	1.00
3093116--3093182	20	3.3	20	75	22	61	47	1	0	50	1.10
3093723--3093747	12	2.1	12	100	0	50	48	0	16	36	1.46
3105787--3105811	2	12.5	2	100	0	50	52	0	0	48	1.00
3116041--3116127	44	2.0	44	100	0	174	52	13	2	31	1.53
3127533--3127567	18	1.9	18	88	11	54	37	25	2	34	1.71
3135078--3135115	5	7.4	5	88	5	58	0	21	0	78	0.74
3135074--3135107	10	3.3	10	91	4	50	0	26	0	73	0.83
3136549--3136593	22	2.0	22	86	4	63	57	2	15	24	1.49
3152150--3152192	21	2.0	21	86	0	59	53	2	4	39	1.34
3157719--3157940	111	2.0	111	98	0	426	30	13	14	41	1.84
3171765--3171834	29	2.4	30	97	2	133	58	0	0	41	0.98
3172065--3172108	14	3.1	14	93	3	70	59	0	0	40	0.98
3183419--3183453	18	2.0	18	88	5	54	28	11	5	54	1.59
3184234--3184272	16	2.4	16	91	8	62	53	5	0	41	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3184581--3184643	22	2.8	22	85	4	72	60	1	1	36	1.16
3196278--3196321	21	2.1	21	100	0	88	31	20	22	25	1.98
3198306--3198349	22	2.1	21	87	8	63	54	25	2	18	1.55
3224052--3224096	18	2.6	17	75	6	54	28	11	11	48	1.73
3225001--3225061	21	2.7	23	75	14	65	19	3	6	70	1.24
3229028--3229066	18	2.0	20	85	9	55	82	5	0	12	0.83
3229919--3229964	15	3.2	15	78	12	60	69	2	0	28	1.00
3229920--3229965	13	3.3	14	81	9	58	67	2	0	30	1.03
3232913--3232977	32	2.0	32	87	0	94	38	9	12	40	1.75
3239646--3239845	23	9.2	23	72	18	169	12	23	22	42	1.87
3239657--3239731	39	1.9	39	94	0	132	13	21	22	42	1.87
3239696--3239802	48	2.3	46	79	9	135	12	24	22	41	1.88
3246098--3246323	23	10.3	23	75	16	221	12	23	22	42	1.87
3246112--3246319	39	4.9	39	74	15	173	12	22	22	42	1.87
3246099--3246323	62	3.5	62	78	14	283	12	23	21	42	1.87
3246161--3246280	48	2.6	46	84	7	161	11	25	22	40	1.87
3246279--3246372	23	4.0	23	75	16	86	11	25	19	43	1.84
3247674--3247850	46	3.7	43	82	12	165	43	22	23	10	1.84
3247651--3247851	71	2.9	68	81	10	194	43	21	24	10	1.84
3247699--3247850	23	6.5	23	81	7	182	44	23	22	9	1.82
3251000--3251033	2	17.0	2	100	0	68	50	0	50	0	1.00
3279869--3279894	12	2.2	12	100	0	52	7	0	0	92	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279869--3279902	11	2.9	11	91	8	50	8	0	2	88	0.62
3287427--3287475	22	2.2	22	85	7	64	26	4	6	63	1.36
3287587--3287629	19	2.2	20	80	8	54	41	6	4	46	1.51
3294831--3295233	196	2.1	197	81	2	461	36	15	10	36	1.83
3309180--3309262	10	8.6	9	74	18	69	67	0	2	30	1.03
3309188--3309261	19	3.8	18	78	10	76	68	0	2	28	1.03
3309180--3309238	26	2.1	29	87	9	88	67	0	3	28	1.06
3309195--3309277	10	8.6	10	75	17	52	67	0	4	27	1.11
3309418--3309456	20	2.0	20	85	10	53	28	0	5	66	1.12
3309418--3309496	41	1.9	40	82	7	95	29	1	3	65	1.17
3309493--3309566	28	2.6	28	82	8	87	32	1	1	64	1.10
3309726--3309920	105	1.8	105	84	7	270	38	4	18	37	1.72
3311162--3311188	6	4.5	6	100	0	54	18	33	0	48	1.49
3312865--3312905	6	6.8	6	100	0	82	51	14	0	34	1.43
3327730--3327758	6	4.8	6	100	0	58	86	0	13	0	0.58
3333499--3333534	6	6.0	6	100	0	72	66	16	16	0	1.25
3340927--3341051	23	5.4	23	77	9	112	11	21	22	44	1.83
3340906--3341051	23	6.4	21	75	14	96	10	23	21	43	1.84
3340907--3341051	69	2.1	69	83	10	181	11	23	21	44	1.84
3341814--3341850	19	1.9	19	88	0	56	56	5	0	37	1.22
3343922--3343965	23	2.0	23	86	4	63	50	2	6	40	1.42
3347243--3347301	30	2.0	31	87	12	88	45	1	10	42	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347925--3348427	61	8.3	59	75	10	360	29	15	15	38	1.89
3347936--3348427	121	4.1	120	75	11	432	30	16	14	38	1.89
3375747--3376316	111	5.1	111	91	1	827	22	27	22	27	1.99
3381915--3381974	24	2.6	23	89	2	84	30	15	15	40	1.87
3381915--3381984	23	3.0	23	87	2	95	31	14	14	40	1.86
3382784--3382816	6	5.5	6	100	0	66	0	84	0	15	0.61
3389494--3389545	25	2.1	26	82	13	65	36	3	7	51	1.49
3404368--3404478	23	4.8	23	80	4	134	43	24	18	14	1.87
3404365--3404490	23	5.5	22	80	2	126	44	23	18	14	1.86
3407539--3407582	19	2.3	19	80	7	54	47	2	6	43	1.42

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   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171