genome.fa.s3.2.7.7.80.10.50.1000.99.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  99  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)
32125523--32125596	29	2.6	30	79	14	77	36	1	28	33	1.66
32133617--32133676	28	2.1	28	87	6	86	25	10	31	33	1.89
32133656--32133914	118	2.2	116	79	10	283	39	6	22	31	1.79
32133833--32134106	59	4.7	59	82	8	208	37	4	24	34	1.74
32133914--32134145	29	7.9	30	78	9	226	34	1	23	39	1.65
32133891--32134149	59	4.4	58	85	9	255	35	1	24	37	1.67
32133921--32134154	88	2.6	88	83	4	265	35	1	23	38	1.63
32133893--32134167	29	9.3	30	75	7	145	35	2	25	37	1.70
32136182--32136258	6	13.0	6	73	13	70	51	2	1	44	1.23
32136182--32136287	41	2.6	40	83	5	115	50	1	3	43	1.30
32149204--32149249	22	2.1	22	83	0	56	56	19	0	23	1.42
32149490--32149550	19	3.4	18	82	10	72	68	0	1	29	0.99
32153266--32153781	134	3.8	140	72	12	341	42	15	13	28	1.84
32158773--32159095	161	2.0	162	87	4	465	32	26	14	26	1.95
32160208--32160447	120	2.0	120	95	0	426	42	12	12	31	1.81
32191123--32191207	27	3.2	26	78	11	82	65	1	1	31	1.07
32191131--32191199	18	3.8	18	75	17	54	65	1	0	33	1.02
32191144--32191207	18	3.6	17	72	19	51	65	0	0	34	0.93
32191571--32191624	23	2.3	23	93	0	90	14	24	7	53	1.66
32193103--32193146	12	3.6	12	82	14	54	56	2	0	40	1.11
32195110--32195190	28	2.9	28	76	7	74	30	24	24	19	1.98
32208334--32208408	23	3.3	23	88	0	123	46	13	4	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32210607--32210774	81	2.1	81	90	0	264	38	16	4	40	1.68
32213159--32213183	3	8.3	3	100	0	50	32	0	32	36	1.58
32213805--32213879	23	3.3	23	83	3	89	9	25	20	45	1.80
32214564--32214609	13	3.5	13	82	11	67	30	28	6	34	1.82
32218633--32218667	13	2.7	13	90	0	52	71	11	0	17	1.14
32220790--32220825	16	2.2	16	90	0	54	55	13	5	25	1.60
32224544--32224606	23	2.7	23	82	2	81	61	25	6	6	1.44
32227339--32227375	10	3.8	10	92	3	58	70	2	0	27	1.01
32227339--32227375	19	1.9	20	88	5	58	70	2	0	27	1.01
32228685--32228716	10	3.2	10	95	0	55	40	12	18	28	1.87
32230071--32230209	48	2.8	50	85	3	192	12	26	34	25	1.92
32230278--32230367	41	2.2	41	80	11	96	31	0	18	50	1.48
32230510--32230545	9	4.0	9	88	0	54	33	11	11	44	1.75
32231104--32231198	47	2.0	47	97	0	181	42	18	9	29	1.82
32231680--32231725	20	2.3	20	89	10	69	65	6	0	28	1.17
32238155--32238184	9	3.3	9	100	0	60	40	10	0	50	1.36
32238866--32238905	20	2.0	21	85	9	57	55	0	22	22	1.44
32238946--32239258	167	1.9	169	82	9	399	36	0	38	24	1.60
32239223--32239260	19	2.0	19	89	0	58	39	2	36	21	1.67
32239384--32239418	18	1.9	18	94	0	61	37	20	11	31	1.88
32245290--32245333	23	1.9	22	86	9	61	63	2	2	31	1.19
32247832--32247948	33	3.5	33	72	10	85	60	5	0	34	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32250912--32250937	3	8.7	3	100	0	52	69	0	0	30	0.89
32251062--32251135	23	3.2	22	72	16	60	47	1	1	50	1.18
32252018--32252076	23	2.5	23	76	15	59	50	1	0	47	1.11
32253249--32253292	23	1.9	23	85	0	61	40	0	4	54	1.21
32257032--32257191	58	2.8	58	81	11	188	47	1	1	49	1.20
32257260--32257364	46	2.5	44	82	13	114	37	25	5	31	1.80
32257271--32257364	44	2.1	44	86	7	127	37	26	5	30	1.79
32257346--32257401	16	3.5	16	95	0	103	26	32	5	35	1.79
32263448--32263560	30	3.8	29	84	4	147	36	0	20	42	1.58
32263448--32263570	60	2.0	60	92	0	201	36	1	21	40	1.63
32263485--32263580	30	3.2	30	73	5	95	37	3	18	40	1.67
32263454--32263584	60	2.2	60	88	1	192	38	2	19	39	1.65
32264701--32264861	71	2.3	71	94	2	279	57	3	0	38	1.21
32265470--32265789	40	8.0	41	79	7	320	27	16	24	32	1.96
32265470--32265783	80	4.0	80	83	4	361	27	16	23	32	1.96
32265470--32265775	120	2.6	118	89	3	452	28	15	23	32	1.95
32277616--32277700	30	2.9	28	86	6	116	32	0	25	41	1.56
32277616--32277702	29	3.0	29	81	8	104	32	0	26	41	1.56
32278794--32278944	67	2.2	67	91	4	239	54	3	0	41	1.16
32278794--32278947	71	2.2	71	89	4	231	55	3	0	41	1.16
32279029--32279119	46	2.0	46	86	0	128	29	9	19	40	1.84
32283366--32283418	23	2.3	23	93	0	88	43	20	26	9	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32294869--32294937	29	2.3	29	85	5	84	47	13	14	24	1.79
32298370--32298396	3	9.0	3	100	0	54	0	33	33	33	1.58
32299324--32299353	6	4.8	6	92	8	51	66	16	16	0	1.25
32299324--32299353	13	2.4	12	94	5	51	66	16	16	0	1.25
32301578--32301605	13	2.2	13	100	0	56	21	7	21	50	1.72
32310614--32310651	20	1.9	20	84	10	51	63	0	5	31	1.17
32310618--32310670	20	2.7	19	74	8	52	60	1	5	32	1.31
32310688--32310739	9	5.7	9	76	13	52	38	0	1	59	1.08
32310699--32310767	29	2.4	28	82	2	75	40	0	1	57	1.07
32310703--32310757	18	2.9	19	84	13	69	43	0	1	54	1.10
32310701--32310768	18	3.7	19	77	14	65	41	0	1	57	1.08
32311053--32311099	20	2.3	21	81	3	60	23	6	4	65	1.33
32311163--32311207	19	2.2	21	84	11	67	28	4	0	66	1.11
32311198--32311252	20	2.7	19	81	10	65	40	5	5	49	1.49
32311270--32311309	21	1.9	21	94	0	71	30	7	2	60	1.38
32311264--32311339	9	7.8	9	73	21	55	35	3	2	57	1.31
32311264--32311339	29	2.5	28	79	10	71	35	3	2	57	1.31
32311270--32311323	21	2.7	20	86	11	67	33	5	3	57	1.40
32311276--32311338	21	3.1	20	76	21	60	33	4	1	60	1.27
32311644--32311668	13	1.9	13	100	0	50	52	8	0	40	1.31
32311530--32311831	164	1.8	165	95	0	552	35	8	11	44	1.71
32317765--32317811	15	3.2	15	80	11	53	34	4	0	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32317730--32318031	106	2.8	107	82	6	346	34	3	4	57	1.37
32317873--32317922	21	2.4	21	83	3	57	30	6	2	62	1.31
32317721--32318020	54	5.6	54	76	11	280	33	3	4	58	1.36
32317916--32317950	18	2.0	18	88	5	54	34	2	2	60	1.26
32321027--32321106	37	2.2	37	86	0	115	28	25	13	32	1.94
32321039--32321119	37	2.2	37	84	4	101	27	20	16	35	1.94
32324618--32324657	11	3.9	10	87	12	55	82	0	17	0	0.67
32324618--32324657	5	7.8	5	86	13	55	82	0	17	0	0.67
32324618--32324657	16	2.6	16	88	11	57	82	0	17	0	0.67
32324618--32324657	21	2.0	20	90	5	62	82	0	17	0	0.67
32325169--32325276	37	2.9	37	97	0	198	31	22	12	34	1.90
32330520--32330591	26	2.8	27	75	8	78	26	20	23	29	1.99
32332685--32332709	11	2.3	11	100	0	50	16	12	32	40	1.84
32338324--32338379	24	2.3	24	100	0	112	42	23	14	19	1.88
32341581--32341670	39	2.3	39	82	3	110	23	12	20	44	1.84
32341621--32341699	38	2.1	39	85	2	106	24	13	17	44	1.85
32344597--32344931	109	3.1	107	76	10	315	27	17	25	30	1.97
32363163--32363199	17	2.2	17	95	0	65	24	8	27	40	1.83
32367168--32367197	14	2.1	15	93	6	53	20	30	6	43	1.77
32369440--32369640	30	6.7	30	74	7	167	34	5	22	37	1.77
32370529--32370941	79	5.2	79	83	4	363	23	17	27	31	1.97
32370530--32370877	121	2.9	119	85	4	418	23	18	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32370529--32370942	40	10.4	40	77	4	374	23	17	27	31	1.97
32377884--32378073	43	4.5	42	83	9	224	27	27	10	35	1.89
32377884--32378073	85	2.2	85	84	7	235	27	27	10	35	1.89
32391771--32391820	20	2.4	21	81	15	52	48	0	10	42	1.37
32394624--32394801	30	6.1	30	79	4	150	37	2	23	35	1.70
32394651--32394802	59	2.6	58	80	8	164	39	2	23	34	1.69
32397032--32397600	39	14.6	38	70	14	263	25	18	31	24	1.98
32397071--32397568	117	4.3	117	79	5	459	25	18	31	25	1.97
32397010--32397643	78	8.1	78	77	6	376	25	18	31	24	1.97
32397500--32397622	39	3.2	37	75	10	122	26	21	29	22	1.99

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