genome.fa.s4.2.7.7.80.10.50.1000.127.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  127  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)
40080347--40080394	17	2.5	20	87	9	66	52	0	4	43	1.20
40081154--40081491	162	2.1	162	92	0	552	25	17	13	43	1.85
40081619--40081724	29	3.6	28	70	10	88	34	28	0	35	1.64
40081621--40081758	59	2.4	59	90	4	210	33	31	2	33	1.70
40081621--40081781	59	2.8	58	86	4	200	33	30	3	32	1.73
40083443--40083725	101	2.8	100	81	6	320	34	14	22	28	1.94
40084098--40084132	16	2.1	16	89	5	52	48	0	0	51	1.00
40084121--40084146	11	2.4	11	100	0	52	46	0	0	53	1.00
40085114--40085149	11	3.4	11	88	3	56	55	0	0	44	0.99
40085578--40085642	29	2.2	29	91	0	103	29	12	24	33	1.92
40087626--40087676	23	2.2	23	92	0	84	56	5	0	37	1.23
40087783--40087829	22	2.1	22	84	7	60	53	0	0	46	1.00
40089748--40089794	22	2.1	22	84	7	60	51	0	2	46	1.13
40098640--40098666	3	9.0	3	100	0	54	66	0	33	0	0.92
40112399--40112464	25	2.5	25	80	7	69	46	4	1	46	1.32
40115181--40115218	2	19.0	2	100	0	76	50	0	0	50	1.00
40115461--40115530	31	2.2	31	84	5	86	45	0	2	51	1.16
40116952--40116998	24	2.0	24	83	8	60	23	17	14	44	1.85
40146781--40146830	24	2.1	24	96	0	91	24	16	28	32	1.96
40153420--40153457	17	2.2	18	85	4	51	36	0	2	60	1.11
40163318--40163359	18	2.4	18	88	4	59	47	19	11	21	1.81
40163745--40163807	13	4.8	13	75	7	65	38	19	4	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40164936--40165003	29	2.3	29	76	2	73	35	7	11	45	1.69
40168440--40168472	11	3.0	11	90	0	57	24	0	3	72	0.98
40168525--40168552	5	5.6	5	100	0	56	35	0	0	64	0.94
40168728--40168772	17	2.5	18	85	10	65	37	0	4	57	1.19
40168702--40168793	47	2.0	46	85	6	123	36	0	8	54	1.32
40169234--40169274	3	13.7	3	100	0	82	65	0	0	34	0.93
40169806--40169904	16	6.4	16	70	6	69	51	24	1	23	1.54
40170058--40170109	26	2.0	26	84	0	68	59	7	0	32	1.26
40174929--40175737	417	2.0	408	88	2	1213	29	14	21	34	1.93
40175551--40176013	139	3.4	136	83	4	545	29	17	21	31	1.96
40175551--40176019	136	3.4	136	82	4	530	29	17	21	31	1.96
40178569--40178597	13	2.1	14	93	6	51	37	0	0	62	0.96
40180189--40180272	31	2.7	30	74	17	73	46	5	5	41	1.52
40180665--40180726	2	31.0	2	100	0	124	50	0	0	50	1.00
40184905--40185159	139	1.8	139	81	6	320	37	6	18	38	1.77
40191666--40191722	29	1.9	29	85	3	78	29	8	15	45	1.77
40198247--40198294	18	2.8	17	78	6	51	31	12	8	47	1.71
40201512--40201646	43	3.1	43	84	2	191	28	28	19	24	1.98
40201524--40201688	43	3.9	41	76	11	131	25	25	20	28	1.99
40201515--40201680	86	1.9	85	84	8	221	27	24	19	28	1.99
40204341--40204566	41	5.5	41	82	2	240	16	28	20	34	1.95
40204341--40204553	82	2.6	82	84	3	266	17	28	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40205404--40205450	22	2.1	22	88	4	67	40	8	12	38	1.74
40207916--40207975	31	1.9	31	82	3	75	45	0	16	38	1.48
40210286--40210824	159	3.4	159	94	0	925	28	10	20	40	1.86
40212849--40212907	31	1.9	31	85	0	82	20	11	23	44	1.85
40213091--40213153	29	2.2	29	100	0	126	49	14	15	20	1.80
40215895--40215937	16	2.8	16	82	3	52	74	6	2	16	1.14
40229806--40229865	31	1.9	31	86	6	86	50	11	1	36	1.49
40231526--40231761	131	1.8	131	89	1	375	29	13	19	37	1.91
40231835--40231882	22	2.3	21	85	7	62	29	0	0	70	0.87
40232255--40232290	17	2.1	18	89	5	56	52	0	0	47	1.00
40236626--40236727	51	2.0	52	86	9	147	36	18	14	30	1.91
40236681--40236873	101	1.9	102	83	7	250	31	12	16	39	1.87
40240086--40240139	26	2.0	28	82	7	67	48	1	0	50	1.11
40247371--40247405	12	2.9	12	86	0	52	60	0	0	40	0.97
40248581--40248622	13	3.2	13	93	3	66	40	21	21	16	1.91
40248584--40248643	7	8.7	7	74	9	52	35	23	23	18	1.96
40248598--40248643	20	2.2	21	88	3	67	34	23	21	19	1.96
40254493--40254533	6	6.8	6	94	0	55	60	0	0	39	0.96
40254493--40254533	12	3.4	12	89	0	64	60	0	0	39	0.96
40255701--40255755	20	2.8	19	83	5	65	40	18	21	20	1.92
40255701--40255741	19	2.1	20	90	4	66	43	17	21	17	1.87
40255744--40255807	7	9.1	7	76	6	67	29	15	26	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40255724--40255807	14	6.1	14	78	6	73	30	16	25	27	1.97
40255737--40255804	21	3.2	21	82	0	73	30	17	23	27	1.97
40255853--40255906	23	2.3	23	74	0	54	14	0	33	51	1.43
40259385--40259426	22	1.9	22	95	0	75	47	2	2	47	1.28
40259383--40259423	11	3.7	11	80	0	55	48	2	2	46	1.28
40271451--40271561	27	4.1	27	80	0	123	38	22	25	13	1.91
40273385--40273462	26	3.1	25	74	13	70	34	10	3	51	1.54
40276287--40276320	17	2.1	17	89	10	54	26	11	8	52	1.67
40280608--40280842	120	2.0	120	85	1	319	30	17	22	28	1.97
40281057--40281099	22	2.0	22	86	4	61	46	2	0	51	1.13
40281098--40281139	11	3.6	11	87	6	57	50	0	0	50	1.00
40281051--40281155	51	2.1	50	89	5	158	52	0	0	45	1.13
40282180--40282229	10	5.3	10	77	22	63	50	0	0	50	1.00
40282156--40282227	30	2.5	28	91	8	119	45	0	0	54	0.99
40287768--40287805	4	9.5	4	94	0	67	47	26	2	23	1.65
40289229--40289560	166	2.0	167	96	0	612	38	11	5	45	1.62
40290378--40290433	29	1.9	29	85	7	78	42	1	10	44	1.49
40292625--40292654	3	10.0	3	100	0	60	66	0	0	33	0.92
40293522--40293577	25	2.3	24	79	11	60	58	1	0	39	1.08
40301458--40301492	3	11.3	3	93	6	61	34	0	31	34	1.58
40305030--40305454	219	1.9	219	80	0	483	38	13	8	39	1.76
40307485--40307513	6	4.8	6	100	0	58	0	34	31	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40323779--40323823	4	11.2	4	90	0	54	44	24	6	24	1.77
40326274--40326603	67	4.9	67	99	0	651	43	11	4	40	1.61
40327327--40327376	18	2.8	18	84	6	57	38	6	0	56	1.24
40332216--40332272	30	1.9	30	92	7	98	50	7	7	35	1.56
40354062--40354195	60	2.2	60	78	2	153	42	8	12	35	1.74
40354386--40354484	31	3.3	31	69	21	77	40	2	0	57	1.10
40355109--40355206	53	1.9	51	87	6	144	16	2	23	58	1.49
40365223--40365269	13	3.7	13	80	5	51	36	6	17	40	1.75
40367754--40367823	29	2.6	27	81	6	79	50	14	15	20	1.78
40375196--40375275	4	19.8	4	84	2	61	62	6	5	26	1.40
40375197--40375275	28	3.1	24	76	15	68	63	6	5	25	1.39
40375414--40375444	16	2.0	15	93	6	53	70	0	0	29	0.87
40377005--40377039	14	2.5	14	90	0	52	71	2	0	25	1.00
40378729--40378781	26	2.0	26	100	0	106	18	15	22	43	1.87
40391647--40391690	22	2.0	22	100	0	88	54	9	9	27	1.62
40393701--40393765	6	10.8	6	83	6	69	50	15	4	29	1.64
40400399--40400433	15	2.3	15	90	5	52	65	0	0	34	0.93
40402254--40402338	35	2.4	35	96	0	152	36	11	15	36	1.84
40404918--40405031	56	2.0	56	98	0	219	28	15	10	45	1.79
40414625--40414666	4	10.5	4	100	0	84	50	23	0	26	1.50
40415689--40415726	19	2.0	19	100	0	76	52	0	0	47	1.00
40416223--40416288	29	2.3	29	83	0	96	54	18	10	16	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40419190--40419884	39	18.1	39	83	4	714	9	36	7	46	1.66
40422842--40422866	2	12.5	2	100	0	50	0	0	48	52	1.00
40423273--40423324	25	2.0	25	85	7	68	61	3	0	34	1.14
40424809--40424845	19	2.0	19	89	5	58	32	0	0	67	0.91
40424808--40424848	18	2.3	17	84	12	55	31	0	0	68	0.90
40425233--40425257	5	5.0	5	100	0	50	60	0	0	40	0.97
40430521--40430589	5	13.2	5	75	14	52	37	1	2	57	1.22
40433419--40434510	390	2.8	389	86	4	1507	37	17	14	30	1.90
40440908--40440938	15	2.1	15	93	0	53	77	0	22	0	0.77
40449585--40449961	204	1.9	199	86	2	538	30	25	15	28	1.96

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