genome.fa.s4.2.7.7.80.10.50.1000.89.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  89  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)
29184870--29184931	19	3.2	19	84	6	63	61	3	3	32	1.28
29184866--29184931	20	3.4	19	79	8	71	59	3	3	34	1.28
29184916--29184948	7	4.6	7	92	7	57	51	0	0	48	1.00
29184898--29184950	7	6.5	8	79	16	56	50	3	0	45	1.19
29185159--29185188	2	15.0	2	100	0	60	50	0	0	50	1.00
29185281--29185327	18	2.6	18	83	10	51	38	0	4	57	1.18
29185281--29185329	19	2.6	19	81	12	57	38	0	4	57	1.18
29189939--29190064	62	2.0	62	84	0	162	40	10	11	37	1.76
29191278--29191315	13	2.8	14	80	8	51	60	2	2	34	1.24
29201917--29201958	11	3.7	11	90	6	66	42	0	0	57	0.99
29201917--29201967	6	8.7	6	86	4	68	43	0	0	56	0.99
29203926--29204067	29	5.0	28	76	19	136	34	28	0	35	1.63
29203914--29204066	57	2.7	57	85	11	206	32	29	1	36	1.69
29203963--29204067	28	3.8	26	80	17	122	34	30	0	34	1.65
29210793--29210938	49	3.0	49	85	2	204	39	21	26	13	1.89
29211290--29211932	200	3.2	200	90	1	968	36	21	22	19	1.95
29212272--29212330	11	5.3	11	82	11	75	42	0	3	54	1.17
29212258--29212329	17	4.2	17	90	0	108	41	0	2	55	1.14
29212268--29212328	23	2.7	23	82	12	81	40	0	3	55	1.16
29212253--29212330	28	2.8	29	80	9	90	42	0	3	53	1.19
29214302--29214420	29	4.1	28	75	18	102	29	26	4	39	1.75
29214351--29214453	28	3.7	29	73	17	83	29	29	4	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29214321--29214456	57	2.4	56	81	6	175	29	29	5	36	1.79
29214279--29214425	29	5.1	29	71	20	85	31	28	4	36	1.76
29222582--29222644	24	2.6	24	82	0	72	47	9	15	26	1.76
29228178--29228204	2	13.5	2	100	0	54	51	48	0	0	1.00
29230916--29230948	16	2.1	16	94	5	59	54	30	6	9	1.56
29232661--29232701	14	2.7	15	88	7	57	56	2	2	39	1.26
29232856--29232899	23	1.9	23	100	0	88	52	4	20	22	1.65
29232877--29233009	68	2.0	68	90	0	212	36	6	21	36	1.78
29236020--29236079	28	2.1	28	87	3	84	50	5	3	41	1.41
29236074--29236113	15	2.5	17	80	19	50	65	0	0	35	0.93
29237647--29237687	21	2.0	21	95	0	73	24	17	24	34	1.96
29238718--29238750	15	2.1	17	88	11	52	84	6	3	6	0.84
29238900--29238944	3	15.0	3	95	0	81	0	31	0	68	0.89
29278482--29278625	73	2.0	74	91	4	238	23	22	9	45	1.81
29279328--29279524	42	4.8	42	83	1	238	27	20	24	26	1.99
29284232--29284294	28	2.2	28	83	5	74	26	11	28	33	1.91
29284245--29284406	57	2.8	56	83	5	157	35	6	27	30	1.81
29284245--29284563	28	10.9	28	67	17	123	36	5	28	30	1.78
29284301--29284621	30	10.8	30	67	20	115	36	3	27	32	1.75
29284318--29284522	59	3.5	59	82	7	238	37	3	28	30	1.75
29284288--29284525	120	2.0	118	85	3	316	36	4	28	30	1.77
29284491--29284621	30	4.3	31	75	13	121	35	2	25	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29284269--29284561	120	2.5	119	79	8	280	36	4	27	30	1.78
29286519--29286562	12	3.7	12	84	9	63	59	2	2	36	1.23
29286525--29286558	11	3.0	11	86	4	50	58	0	2	38	1.13
29288651--29288971	158	2.0	157	86	0	444	29	21	23	25	1.99
29300229--29300578	50	7.0	50	83	5	395	34	16	25	24	1.95
29300227--29300578	100	3.5	99	87	2	465	34	16	25	24	1.95
29300230--29300554	74	4.3	74	80	5	330	34	16	24	24	1.96
29300230--29300578	26	13.9	25	77	5	289	34	16	25	24	1.95
29300566--29300624	24	2.5	24	86	5	84	40	18	20	20	1.91
29302513--29302552	20	2.0	21	85	5	55	20	7	27	45	1.78
29304130--29304197	32	2.1	32	84	10	86	8	30	1	58	1.37
29304809--29305005	42	4.8	42	84	1	238	27	21	24	26	1.99
29310036--29310131	27	3.4	29	76	11	92	37	0	7	55	1.28
29310080--29310134	16	3.4	16	82	5	74	41	0	3	54	1.18
29310075--29310142	33	2.1	33	88	0	100	36	0	7	55	1.28
29313436--29313757	158	2.0	158	87	0	455	27	22	24	25	2.00
29317132--29317173	2	21.5	2	95	4	77	50	0	0	50	1.00
29320200--29320236	18	2.1	18	89	0	56	24	27	0	48	1.51
29323285--29323390	52	2.0	52	94	0	185	37	26	13	22	1.91
29327103--29327268	46	3.6	46	88	5	239	43	18	13	23	1.86
29327102--29327232	23	5.7	22	68	25	76	43	18	15	22	1.87
29327174--29327253	23	3.5	22	69	19	65	41	22	11	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29329955--29330010	28	2.0	28	89	0	85	21	26	17	33	1.96
29335667--29335923	26	10.2	26	68	16	98	35	15	22	26	1.94
29335675--29335897	24	9.0	24	77	6	212	34	17	22	25	1.96
29335674--29335900	50	4.5	50	78	6	226	34	17	22	25	1.95
29335666--29335922	100	2.6	101	82	6	310	35	15	22	25	1.94
29335727--29335948	100	2.2	100	85	1	293	35	15	22	25	1.94
29335910--29335972	24	2.6	24	79	0	81	39	15	22	22	1.92
29335727--29335974	100	2.5	100	83	2	257	36	15	22	25	1.93
29339278--29339356	23	3.5	22	84	3	95	13	22	25	37	1.91
29344257--29344309	23	2.3	23	96	0	97	33	20	18	26	1.96
29346608--29346661	23	2.3	23	100	0	108	14	24	24	37	1.93
29346608--29346687	23	3.5	22	89	6	90	16	23	26	33	1.95
29346646--29346703	23	2.6	23	86	2	73	13	20	29	36	1.91
29346585--29346703	45	2.6	46	75	11	104	13	22	26	37	1.91
29348196--29348295	29	3.5	28	71	11	85	31	0	35	34	1.58
29348167--29348656	59	8.4	59	87	2	623	32	1	31	34	1.65
29348166--29348656	117	4.2	118	85	2	641	32	1	31	34	1.65
29350500--29350558	6	9.8	6	75	14	59	52	0	6	40	1.28
29350501--29350558	17	3.6	17	81	13	86	53	0	6	39	1.28
29350507--29350569	11	5.9	11	73	14	51	53	1	6	38	1.36
29351382--29351424	16	2.6	17	82	14	54	23	6	27	41	1.80
29356314--29356353	4	10.0	4	94	0	71	0	22	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29357130--29357326	42	4.8	42	83	5	233	28	19	25	25	1.99
29360698--29360878	42	4.4	41	83	7	224	24	25	22	28	1.99
29362849--29362877	3	9.7	3	100	0	58	0	34	31	34	1.58
29363667--29363721	13	4.1	14	81	6	60	36	16	5	41	1.71
29375415--29375581	42	4.0	42	81	3	192	28	21	25	24	1.99
29375415--29375611	42	4.8	41	78	5	175	28	19	25	25	1.99
29379462--29379626	42	3.9	42	86	1	224	24	26	21	27	1.99
29382280--29382526	123	2.0	123	87	0	350	28	10	37	23	1.87
29393620--29393735	55	2.1	55	96	1	214	27	18	8	44	1.79
29405272--29405308	17	2.2	17	90	0	56	16	10	27	45	1.80
29409704--29409731	12	2.3	12	100	0	56	42	10	25	21	1.85
29418306--29418339	18	2.0	17	88	11	52	0	2	20	76	0.92
29419714--29419854	56	2.5	54	83	2	174	26	13	15	44	1.83
29419851--29419884	14	2.4	14	90	5	50	29	17	14	38	1.90
29424197--29424256	25	2.4	25	91	0	93	40	15	8	36	1.77
29429268--29429310	18	2.4	18	88	7	61	53	0	0	46	1.00
29431632--29431685	26	2.1	26	82	6	65	31	1	1	64	1.14
29432167--29432213	17	2.6	18	80	10	51	38	0	8	53	1.32
29432187--29432220	17	2.0	17	88	0	50	35	0	11	52	1.38
29434238--29434301	30	2.1	31	82	5	78	51	10	0	37	1.37
29434464--29434497	2	17.5	2	93	6	61	50	0	0	50	1.00
29437374--29437616	120	2.0	120	98	0	468	31	13	32	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29457149--29457223	24	3.1	24	86	0	96	24	22	24	29	1.99
29457954--29457993	21	1.9	21	94	0	71	27	17	22	32	1.96
29459334--29459403	35	2.0	35	100	0	140	42	14	28	14	1.84
29460879--29460959	23	3.6	23	81	3	101	16	16	23	44	1.86
29460910--29460950	22	2.0	21	85	9	57	14	14	26	43	1.84
29465325--29465409	26	3.3	26	84	11	72	34	28	17	20	1.95
29465342--29465467	25	5.0	25	85	4	157	34	26	17	22	1.96
29466779--29466816	18	2.2	18	86	9	53	28	26	0	44	1.54
29473018--29473121	37	2.7	38	76	5	93	31	26	19	22	1.97
29473224--29473260	18	2.1	18	89	0	56	24	27	0	48	1.51

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