genome.fa.s9.2.7.7.80.10.50.1000.127.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  127  of  182  ( 21729 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)
40392190--40392244	21	2.7	19	73	15	56	49	0	16	34	1.46
40398282--40398427	23	6.4	22	84	5	175	17	19	22	39	1.92
40398282--40398427	46	3.2	45	89	5	213	17	19	22	39	1.92
40398282--40398431	68	2.2	68	84	7	189	17	20	22	40	1.92
40401929--40402037	39	2.8	39	81	0	137	39	20	15	24	1.91
40404885--40404924	21	1.9	21	94	0	71	57	12	0	30	1.36
40409211--40409349	21	6.8	21	71	17	96	40	5	24	29	1.78
40409286--40409332	18	2.4	19	89	10	69	42	6	27	23	1.78
40410719--40410783	30	2.2	30	85	0	85	24	4	12	58	1.53
40411678--40411716	18	2.2	17	90	4	60	35	0	2	61	1.10
40413813--40414108	91	3.3	88	85	9	329	29	13	19	36	1.91
40413859--40414145	42	6.6	42	82	13	341	30	14	17	37	1.90
40413863--40414145	91	3.3	83	86	10	358	30	14	18	37	1.90
40418103--40418168	33	2.0	33	90	0	105	21	24	10	43	1.83
40425377--40425431	26	2.1	26	93	0	92	27	23	7	41	1.80
40426311--40426380	20	3.4	21	78	17	67	51	0	0	48	1.00
40426311--40426369	11	5.4	11	78	11	59	50	0	0	49	1.00
40427046--40427100	19	3.1	18	82	14	69	49	0	0	50	1.00
40427914--40427954	21	2.0	21	85	0	55	46	0	17	36	1.48
40428162--40428207	21	2.2	21	84	7	58	34	0	21	43	1.53
40430116--40430214	29	3.4	28	78	10	92	41	19	15	24	1.89
40430175--40430260	29	3.0	29	84	3	111	38	15	20	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40430821--40430980	53	3.0	51	79	12	155	29	35	15	20	1.93
40432986--40433011	13	2.0	13	100	0	52	38	30	7	23	1.83
40435971--40435995	2	12.5	2	100	0	50	52	0	0	48	1.00
40442532--40442620	43	2.0	44	84	2	117	51	3	7	37	1.48
40443012--40443109	15	6.5	15	70	13	60	62	1	2	34	1.14
40443058--40443109	16	3.4	16	81	5	63	67	1	0	30	1.02
40443010--40443089	23	3.6	22	73	17	67	62	0	2	35	1.09
40447343--40447384	21	1.9	23	90	9	70	54	23	9	11	1.66
40452830--40452879	24	2.1	24	100	0	100	44	28	12	16	1.83
40453532--40453590	24	2.5	24	81	10	59	37	5	0	57	1.21
40453578--40453661	29	3.0	26	73	17	69	46	0	2	51	1.14
40453564--40453709	58	2.5	58	83	8	181	45	1	1	52	1.18
40453879--40453934	16	3.5	16	82	4	69	26	23	7	42	1.79
40456533--40456576	12	3.8	12	78	6	54	45	20	9	25	1.80
40456528--40456597	23	3.0	23	85	2	95	44	18	10	27	1.81
40456712--40456790	17	4.8	16	80	10	79	41	2	3	51	1.33
40456712--40456773	6	10.8	6	76	13	51	41	3	3	51	1.34
40456712--40456790	11	7.1	11	73	12	56	41	2	3	51	1.33
40458735--40459146	59	6.9	59	79	8	369	37	24	3	34	1.71
40458779--40459151	30	12.6	30	76	12	278	38	24	3	34	1.71
40466333--40466437	50	2.1	51	85	1	140	43	21	23	10	1.84
40466441--40467586	92	12.5	92	97	0	2143	31	15	19	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40467841--40467882	16	2.6	16	88	3	57	40	4	2	52	1.35
40467838--40467894	28	2.0	28	86	6	80	42	3	1	52	1.28
40467858--40467913	11	5.0	11	74	10	51	42	3	1	51	1.29
40469657--40470058	59	6.9	59	78	8	342	37	24	3	35	1.72
40469657--40470058	29	13.7	30	77	9	323	37	24	3	35	1.72
40469667--40470021	88	4.1	87	79	5	308	37	23	3	35	1.71
40470104--40470285	84	2.2	84	95	0	328	34	20	7	37	1.80
40472969--40473220	58	4.3	60	77	12	238	38	2	24	34	1.70
40473010--40473218	29	7.2	29	68	15	110	36	2	24	36	1.69
40473080--40473217	29	4.7	30	77	8	124	39	2	23	34	1.70
40474330--40474361	9	3.4	9	91	8	55	40	0	0	59	0.97
40474797--40474853	25	2.3	25	87	0	87	21	12	43	22	1.85
40475085--40475178	17	5.5	17	83	5	118	56	4	1	38	1.26
40475104--40475178	35	2.2	34	90	2	114	56	4	0	40	1.18
40475513--40476101	206	2.9	204	86	3	749	23	22	18	34	1.96
40476212--40476365	78	2.0	78	84	0	200	27	20	26	25	1.99
40493173--40493211	9	4.3	9	80	0	51	76	5	10	7	1.13
40494640--40494740	28	3.5	28	71	12	87	36	5	22	34	1.79
40494640--40494742	29	3.6	29	75	13	104	36	5	22	34	1.78
40494660--40494966	30	10.4	31	68	15	152	38	4	24	31	1.77
40494667--40494975	118	2.6	117	79	7	297	38	4	23	33	1.75
40494815--40494975	59	2.7	58	87	6	227	38	2	22	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40494875--40494966	28	3.2	29	75	15	100	39	1	26	33	1.64
40496107--40496138	9	3.4	9	91	8	55	40	0	0	59	0.97
40496574--40496630	25	2.3	25	84	0	78	21	10	45	22	1.82
40496881--40496956	17	4.4	17	83	6	89	55	5	0	39	1.23
40496894--40496956	6	10.7	6	75	10	58	57	3	0	39	1.15
40496862--40496956	17	5.5	17	79	7	75	55	5	1	37	1.29
40497781--40497861	23	3.5	23	76	5	74	28	11	17	43	1.83
40506298--40506394	49	2.0	48	89	2	149	35	12	8	44	1.72
40508775--40508815	12	3.4	12	89	0	64	4	21	9	63	1.44
40522052--40522547	231	2.1	231	85	1	654	26	30	6	37	1.80
40522052--40522615	231	2.4	231	83	3	636	26	31	6	36	1.81
40523146--40523174	6	4.8	6	100	0	58	34	13	51	0	1.42
40523544--40523644	48	2.1	49	81	3	116	32	7	16	42	1.77
40526412--40526696	59	4.9	58	76	5	218	33	6	25	33	1.82
40526410--40526707	117	2.5	116	78	6	296	33	6	24	34	1.82
40526426--40526856	29	14.8	28	71	13	203	35	5	23	35	1.78
40526671--40526825	59	2.6	59	85	4	213	37	3	20	38	1.71
40526671--40526859	59	3.2	58	78	12	190	38	4	20	37	1.72
40526671--40526888	118	1.8	118	80	9	257	37	5	20	37	1.75
40528648--40528686	10	3.8	10	84	15	53	56	2	0	41	1.13
40528648--40528692	21	2.1	22	88	12	67	55	6	0	37	1.26
40528996--40529373	208	1.8	207	85	4	528	23	21	16	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40537568--40537846	59	4.7	57	74	10	215	34	3	25	36	1.73
40537548--40537822	88	3.1	86	72	11	227	33	4	26	35	1.76
40537593--40538023	29	14.7	30	69	10	162	35	2	25	36	1.71
40537593--40537846	118	2.2	117	84	3	314	34	3	25	36	1.74
40537799--40537994	89	2.2	88	80	8	211	37	2	23	36	1.67
40537862--40538053	59	3.2	57	76	13	158	40	2	19	37	1.66
40537862--40538058	29	6.6	29	76	13	145	40	2	20	36	1.66
40539145--40539215	20	3.4	20	75	11	63	43	1	2	52	1.24
40539857--40539931	11	6.8	10	75	19	62	56	4	0	40	1.18
40539857--40539931	23	3.4	22	77	15	82	56	4	0	40	1.18
40539870--40539933	17	3.8	17	87	0	92	54	4	0	40	1.21
40539864--40539933	6	12.2	6	73	14	58	54	4	0	41	1.20
40545063--40545192	37	3.6	36	85	1	161	35	26	19	18	1.95
40550656--40550691	17	2.1	18	89	5	56	50	2	5	41	1.40
40557906--40557992	23	3.8	23	78	4	86	18	17	20	43	1.88
40557916--40557992	23	3.3	24	80	5	88	20	16	20	41	1.90
40570575--40570683	20	5.4	20	70	20	68	38	12	11	37	1.79
40570574--40570663	40	2.2	40	86	3	119	37	13	10	38	1.78
40570590--40570682	40	2.3	40	83	0	114	41	10	10	36	1.75
40573132--40573182	21	2.5	21	77	3	59	37	21	7	33	1.82
40573285--40573329	20	2.2	20	80	0	54	31	8	20	40	1.83
40574163--40574222	28	2.1	28	96	0	111	13	8	21	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40576590--40576638	20	2.4	21	86	10	66	46	0	2	51	1.12
40577672--40577696	10	2.5	10	100	0	50	72	0	0	28	0.86
40577685--40577726	15	2.7	15	86	13	59	61	4	0	33	1.17
40577817--40577874	23	2.5	24	81	10	68	43	1	1	53	1.21
40582908--40582954	18	2.6	18	79	0	58	55	10	6	27	1.58
40582908--40582962	18	3.1	18	72	15	51	54	10	7	27	1.61
40591779--40591844	30	2.2	30	86	5	89	50	4	1	43	1.32
40593920--40594019	52	1.9	52	86	6	141	52	4	23	21	1.64
40594316--40594360	22	2.1	22	83	4	56	60	0	4	35	1.17
40614221--40614262	21	2.0	22	86	9	61	21	7	16	54	1.65

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