genome.fa.s4.2.7.7.80.10.50.1000.50.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  50  of  193  ( 23090 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)
15224311--15224984	336	2.0	336	99	0	1330	40	13	17	29	1.87
15227897--15227941	20	2.2	20	85	14	58	57	28	2	11	1.45
15227999--15228042	18	2.4	18	92	0	79	65	9	11	13	1.46
15240845--15240916	18	4.1	17	73	18	58	37	26	18	18	1.93
15246155--15246196	15	2.8	15	81	0	57	21	19	19	40	1.92
15249247--15249294	23	2.1	23	84	7	62	47	8	16	27	1.75
15251423--15251476	17	3.2	17	82	10	58	61	11	12	14	1.58
15259943--15260026	42	2.0	42	100	0	168	33	16	21	28	1.95
15262907--15263060	50	3.1	49	76	5	150	50	7	5	37	1.54
15265714--15265860	22	6.2	24	81	13	164	38	19	26	15	1.91
15265726--15265849	47	2.7	47	94	3	216	37	19	25	17	1.94
15266064--15266100	2	18.5	2	100	0	74	51	0	0	48	1.00
15268283--15268729	82	5.5	82	81	5	430	46	11	11	30	1.75
15268287--15268729	158	2.8	158	80	4	471	46	11	11	30	1.74
15269193--15269377	50	3.7	50	84	6	198	51	10	2	35	1.50
15269213--15269385	50	3.5	50	84	5	226	52	10	2	34	1.48
15269221--15269367	47	3.0	47	88	4	177	52	9	1	36	1.43
15269885--15270088	107	1.9	107	93	0	354	23	33	19	23	1.97
15271325--15271379	19	2.8	20	84	13	71	43	0	0	56	0.99
15271323--15271384	28	2.3	27	86	8	81	41	0	0	58	0.98
15271332--15271392	18	3.3	18	81	6	61	37	0	1	60	1.07
15276566--15276605	20	2.1	19	85	4	53	37	7	7	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15278600--15278899	53	5.7	53	84	2	381	27	18	21	33	1.96
15282189--15282238	22	2.2	24	85	7	68	18	8	4	70	1.28
15291662--15291709	17	2.8	17	77	0	51	18	16	14	50	1.79
15308168--15308223	22	2.5	20	78	18	58	64	10	1	23	1.35
15308275--15308333	3	19.7	3	86	6	84	64	0	3	32	1.10
15309371--15309395	13	1.9	13	100	0	50	40	16	24	20	1.91
15309374--15309419	20	2.3	20	88	0	65	36	21	21	19	1.95
15323538--15323674	68	2.0	68	98	0	265	26	16	29	27	1.97
15324718--15324742	5	5.0	5	100	0	50	80	0	20	0	0.72
15325705--15326155	48	9.2	48	76	8	365	36	23	15	24	1.94
15325726--15326100	202	1.9	203	86	0	536	36	24	15	24	1.94
15326085--15326180	46	2.1	46	90	0	147	38	22	15	22	1.92
15339263--15339493	48	4.8	48	85	3	306	34	27	13	24	1.93
15339263--15339487	97	2.4	96	87	3	312	34	27	12	25	1.92
15339513--15339927	48	8.8	48	82	5	370	37	23	14	24	1.92
15339508--15339927	95	4.4	96	79	8	366	36	23	14	24	1.93
15339508--15339927	143	2.9	143	78	11	431	36	23	14	24	1.93
15346711--15346873	81	2.0	81	93	0	281	38	14	13	33	1.85
15348331--15348382	27	1.9	27	88	0	77	63	5	9	21	1.45
15348369--15348453	31	2.6	31	76	16	82	63	9	2	24	1.36
15349638--15349682	12	3.5	13	80	20	51	68	6	0	24	1.13
15350088--15350197	50	2.2	50	78	3	114	30	20	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15350445--15350604	50	3.2	50	86	0	212	22	23	18	35	1.96
15358874--15359006	42	3.2	41	81	8	128	33	0	18	48	1.53
15365631--15365663	16	2.0	17	88	5	50	75	0	3	21	0.93
15373385--15373467	38	2.2	38	82	0	94	38	12	28	20	1.88
15378892--15379043	27	5.7	26	66	12	78	25	32	19	22	1.97
15378897--15379027	27	4.9	25	69	11	82	28	34	17	19	1.95
15378898--15379068	80	2.1	80	96	0	315	26	32	18	22	1.97
15384773--15384875	54	1.9	54	91	0	170	33	14	25	27	1.94
15384984--15385061	28	2.8	28	86	2	102	24	11	21	42	1.86
15385186--15385291	28	3.8	28	86	3	97	20	19	19	39	1.93
15385177--15385302	56	2.2	57	80	4	139	19	20	20	39	1.92
15385208--15385302	28	3.4	28	89	1	127	18	20	20	41	1.91
15386484--15386650	46	3.6	46	74	8	115	25	16	22	36	1.94
15389041--15389101	28	2.2	28	82	5	70	39	22	18	19	1.92
15389133--15389208	28	2.8	28	88	6	111	34	25	15	25	1.95
15403030--15403068	20	2.0	19	85	5	51	43	2	0	53	1.14
15405508--15405547	19	2.2	19	86	13	57	25	0	0	75	0.81
15408165--15408198	17	2.0	17	100	0	68	17	35	5	41	1.74
15418895--15418962	29	2.3	29	90	5	102	48	7	11	32	1.67
15423485--15423521	18	2.2	18	85	9	51	27	16	29	27	1.97
15441717--15441884	58	2.9	59	82	7	186	48	10	16	25	1.77
15441717--15441884	57	2.9	59	83	7	195	48	10	16	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15443577--15443614	14	2.7	15	84	8	53	26	0	0	73	0.83
15444017--15444069	26	2.0	27	85	3	72	32	1	1	64	1.15
15454285--15454329	19	2.2	21	84	11	58	51	2	0	46	1.13
15454247--15454374	58	2.2	57	86	8	170	52	2	2	42	1.27
15454273--15454368	29	3.4	27	70	16	79	52	1	2	44	1.19
15466885--15466927	19	2.3	19	95	0	77	41	16	0	41	1.48
15475128--15475175	6	8.0	6	100	0	96	0	50	16	33	1.46
15475614--15475647	17	1.9	18	88	5	52	50	0	0	50	1.00
15475669--15475713	19	2.4	19	81	11	56	33	6	2	57	1.37
15475862--15475907	6	7.2	6	81	13	56	15	0	36	47	1.45
15476842--15476872	16	1.9	16	93	0	53	29	3	0	67	1.06
15479525--15479583	29	2.0	29	83	6	75	42	6	8	42	1.61
15479758--15479818	23	2.7	23	75	10	54	47	4	3	44	1.41
15480605--15480637	2	16.5	2	100	0	66	51	0	0	48	1.00
15480893--15480928	3	12.0	3	100	0	72	33	0	0	66	0.92
15482248--15482293	23	2.0	24	95	4	85	21	0	10	67	1.21
15483063--15483112	24	2.1	24	84	0	64	48	6	0	46	1.27
15485041--15485083	19	2.3	18	84	11	52	37	0	4	58	1.19
15489316--15489373	13	3.6	17	71	20	52	27	5	8	58	1.49
15489308--15489415	31	3.5	31	87	2	128	27	6	11	54	1.60
15489691--15489715	13	1.9	13	100	0	50	56	12	0	32	1.36
15489612--15489768	57	2.7	57	86	2	199	56	10	4	28	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15492472--15492530	24	2.6	22	74	15	57	42	0	1	55	1.09
15495007--15495095	39	2.3	38	94	3	160	48	19	3	29	1.65
15498960--15499034	26	2.9	26	82	5	82	32	16	12	40	1.84
15499179--15499213	6	5.8	6	86	0	52	20	31	0	48	1.50
15499179--15499213	18	1.9	18	94	0	61	20	31	0	48	1.50
15502912--15503017	53	2.0	53	96	0	194	36	10	18	33	1.85
15503198--15503233	17	2.1	18	90	10	58	50	0	8	41	1.33
15504274--15504345	36	2.1	35	86	5	101	33	16	8	41	1.78
15519888--15519935	18	2.7	18	90	0	78	68	14	14	2	1.30
15527491--15527638	74	2.0	74	92	2	244	39	17	14	28	1.89
15529661--15529706	25	1.9	23	83	16	58	52	2	32	13	1.52
15531934--15531997	33	1.9	33	81	12	78	34	6	20	39	1.78
15532172--15532233	31	2.0	31	84	12	83	33	6	20	38	1.79
15531800--15532282	238	2.0	236	94	1	844	39	8	16	36	1.79
15532576--15532617	21	2.0	21	90	0	66	38	19	7	35	1.79
15535086--15535195	55	2.0	55	81	0	130	25	28	28	18	1.98
15541201--15541251	26	2.0	26	88	0	75	47	11	11	29	1.76
15551993--15552162	84	2.0	84	94	0	295	36	19	5	38	1.76
15552505--15552534	15	2.0	15	93	0	51	30	30	6	33	1.83
15566952--15567049	38	2.6	38	74	7	101	32	23	12	31	1.91
15567896--15567926	16	1.9	16	93	0	53	22	16	0	61	1.34
15571459--15571500	12	3.5	12	78	12	50	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15571905--15571974	34	2.1	34	86	0	95	20	21	11	47	1.81
15571927--15571979	17	3.1	17	86	0	70	18	18	13	49	1.80
15572457--15572496	21	1.9	21	94	0	71	25	30	17	27	1.97
15588061--15588111	25	2.1	24	89	7	77	17	7	9	64	1.46
15590893--15590935	22	2.0	22	86	4	61	30	18	16	34	1.93
15597470--15597912	197	2.3	193	80	5	482	24	27	20	26	1.99
15611674--15611858	93	2.0	93	94	0	325	32	25	11	30	1.92
15620582--15620607	13	2.0	13	100	0	52	46	7	15	30	1.74
15625841--15625897	17	3.6	16	75	9	55	45	0	0	54	0.99
15625842--15625874	17	1.9	17	93	0	57	45	0	0	54	0.99

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193