genome.fa.s3.2.7.7.80.10.50.1000.40.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  40  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)
17741464--17741509	11	3.9	12	81	13	60	34	0	0	65	0.93
17741550--17741588	14	2.8	13	88	7	51	69	0	0	30	0.89
17760875--17760922	17	3.1	17	69	25	52	56	8	0	35	1.30
17761533--17761595	29	2.1	31	85	5	85	38	0	6	55	1.25
17763414--17763484	36	2.0	35	84	13	92	50	4	0	45	1.21
17765975--17766012	18	2.1	18	85	9	51	73	2	0	23	0.95
17767687--17767736	24	2.1	24	82	17	61	40	0	12	48	1.40
17768744--17768937	96	2.0	95	88	1	289	34	5	4	55	1.44
17769362--17769388	2	13.5	2	100	0	54	48	0	0	51	1.00
17772300--17772359	31	1.9	33	86	10	90	38	5	13	43	1.66
17773480--17773517	20	1.9	20	89	10	60	63	5	2	28	1.30
17780463--17780496	2	17.0	2	100	0	68	50	0	0	50	1.00
17788799--17788834	18	2.0	18	94	0	63	27	8	38	25	1.84
17788855--17788894	3	13.3	3	89	0	62	37	2	30	30	1.71
17788800--17788894	12	7.9	12	72	9	59	33	7	33	25	1.84
17789332--17789377	24	1.9	24	86	0	65	26	13	6	54	1.62
17791324--17791371	25	1.9	25	91	0	78	25	10	6	58	1.54
17801983--17802026	3	14.7	3	100	0	88	31	0	0	68	0.90
17805993--17806034	13	3.1	14	83	10	52	45	16	19	19	1.86
17811168--17811230	3	21.0	3	82	12	76	34	4	31	28	1.78
17813744--17813779	19	2.0	19	89	10	58	44	2	11	41	1.54
17814139--17814196	30	2.0	29	86	3	80	56	8	5	29	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17816131--17816163	17	1.9	17	88	11	50	18	9	6	66	1.40
17827502--17828025	262	2.0	262	99	0	1039	37	18	14	28	1.91
17832558--17832619	28	2.3	27	81	15	74	33	4	0	61	1.17
17836589--17837188	298	2.0	300	97	0	1141	40	20	12	26	1.88
17839191--17839216	3	8.7	3	100	0	52	65	0	34	0	0.93
17842645--17842688	13	3.3	13	81	6	52	56	2	2	38	1.24
17843975--17844017	18	2.4	18	88	7	61	46	0	0	53	1.00
17845453--17845487	18	2.0	17	94	5	61	42	0	0	57	0.99
17846160--17846237	24	3.3	23	82	7	95	30	12	21	34	1.91
17846160--17846223	24	2.7	24	92	2	103	31	14	20	34	1.92
17846353--17846395	19	2.3	19	84	4	61	60	4	0	34	1.17
17846368--17846429	27	2.3	27	85	0	79	48	1	0	50	1.10
17859692--17859722	14	2.2	14	94	0	53	51	0	0	48	1.00
17861363--17861402	19	2.1	19	90	0	62	40	0	0	60	0.97
17877669--17877793	23	5.4	23	84	11	150	40	26	18	15	1.90
17877669--17877775	46	2.3	46	90	3	171	40	27	17	14	1.89
17880464--17880524	24	2.5	24	86	0	86	49	11	13	26	1.75
17882450--17882510	24	2.5	24	83	0	77	50	11	11	26	1.72
17886181--17886231	19	2.7	19	80	14	70	64	1	5	27	1.27
17886406--17886479	9	7.8	9	69	16	51	37	0	0	62	0.96
17886424--17886473	21	2.3	21	83	10	66	42	0	0	58	0.98
17886424--17886470	20	2.3	20	88	3	67	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17886406--17886480	29	2.6	29	81	8	82	37	0	0	62	0.95
17890721--17890764	11	4.0	11	85	8	54	47	0	0	52	1.00
17890734--17890768	10	3.3	10	92	8	52	60	0	0	40	0.97
17891032--17891093	30	2.1	29	87	3	88	27	3	1	67	1.15
17890959--17891137	10	18.1	10	68	18	65	31	4	1	62	1.22
17896686--17896808	63	2.0	58	92	7	201	36	13	40	9	1.77
17909427--17909462	12	3.0	12	95	0	63	58	5	0	36	1.22
17929553--17929601	20	2.5	20	96	0	89	36	8	6	48	1.58
17942941--17942965	4	6.2	4	100	0	50	52	24	0	24	1.48
17943293--17943334	22	2.0	22	86	13	61	69	2	0	28	1.01
17944510--17944577	32	2.1	32	83	5	84	45	10	10	33	1.72
17944702--17944896	98	2.0	98	92	0	327	37	18	11	32	1.87
17944888--17944928	13	3.2	13	83	13	57	46	2	14	36	1.58
17944888--17944942	26	2.0	28	86	6	78	47	1	12	38	1.52
17944894--17944942	14	3.6	14	81	10	50	48	0	10	40	1.37
17946586--17946612	9	3.0	9	100	0	54	55	0	22	22	1.44
17949056--17949091	18	1.9	19	88	5	56	47	0	0	52	1.00
17966401--17966428	13	2.2	13	100	0	56	50	14	7	28	1.69
17970119--17970157	21	1.9	20	94	5	69	33	10	25	30	1.89
17970274--17970308	15	2.3	15	100	0	70	25	0	0	74	0.82
17970315--17970413	11	8.6	13	69	25	55	58	0	1	40	1.05
17970313--17970415	23	4.6	22	75	13	77	59	0	0	39	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17970335--17970398	9	6.8	9	79	13	51	59	0	1	39	1.07
17970331--17970411	21	3.8	21	82	11	85	60	0	1	38	1.05
17970313--17970415	30	3.4	31	75	17	101	59	0	0	39	1.04
17970430--17970479	22	2.3	22	80	19	52	46	6	0	48	1.27
17970870--17970894	13	1.9	13	100	0	50	56	8	8	28	1.57
17978589--17978753	83	2.0	83	92	2	278	24	18	10	47	1.79
17984772--17984905	60	2.3	60	88	3	193	44	12	18	24	1.85
17984799--17984905	30	3.6	30	72	15	96	44	12	18	24	1.84
17996595--17996649	18	3.2	17	77	10	58	32	0	3	63	1.12
17996728--17996779	15	3.4	15	71	12	52	61	3	0	34	1.14
17996729--17996785	30	1.9	30	89	7	89	61	3	0	35	1.13
17997228--17997315	38	2.3	38	86	7	117	54	6	0	38	1.27
17997244--17997323	38	2.1	39	92	2	135	53	6	1	38	1.34
18002519--18002624	30	3.7	28	70	17	83	37	3	26	32	1.74
18002532--18002624	29	3.2	29	72	17	93	37	3	24	34	1.72
18002534--18002625	30	3.1	30	72	17	93	35	3	25	35	1.72
18002561--18002831	29	9.2	29	67	13	135	34	3	28	33	1.75
18002524--18002861	59	5.7	59	86	4	434	35	3	27	33	1.74
18002883--18002947	29	2.2	29	83	5	78	30	9	21	38	1.85
18004644--18004747	6	18.0	6	73	18	87	55	0	0	42	1.12
18004662--18004713	11	4.9	11	73	17	56	59	0	1	38	1.08
18004644--18004735	17	5.7	16	86	11	125	56	0	1	42	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18011237--18011302	25	2.8	25	70	17	61	48	1	3	46	1.26
18011473--18011520	14	3.3	14	81	16	53	45	0	4	50	1.21
18011753--18011803	21	2.4	22	87	6	70	64	3	17	13	1.42
18013981--18014019	15	2.6	16	84	15	57	30	0	2	66	1.05
18022735--18022773	20	2.0	20	84	0	51	48	2	0	48	1.15
18042229--18042253	3	8.3	3	100	0	50	32	68	0	0	0.90
18051891--18051990	50	2.0	50	100	0	200	38	18	10	34	1.84
18053737--18053769	2	16.5	2	93	0	57	0	54	0	45	0.99
18060410--18060445	2	18.5	2	94	5	65	47	0	52	0	1.00
18062238--18062264	13	2.1	13	100	0	54	40	22	22	14	1.90
18066677--18066743	34	2.0	34	100	0	134	32	11	20	34	1.90
18069836--18069896	23	2.7	24	78	17	67	47	1	4	45	1.34
18069865--18069929	30	2.2	30	82	0	76	40	6	7	46	1.58
18079131--18079362	7	33.6	7	70	13	79	21	4	29	43	1.72
18079167--18079291	27	4.6	27	94	0	205	21	4	26	47	1.71
18079289--18079364	15	5.3	15	84	6	95	26	0	26	47	1.52
18079366--18079568	35	6.9	28	72	18	62	22	4	25	47	1.70
18079275--18079400	15	8.4	15	73	15	82	24	0	27	46	1.58
18079395--18079455	20	3.3	20	64	29	53	22	9	24	42	1.84
18079345--18079476	35	3.8	35	89	3	178	22	6	24	46	1.74
18079378--18079499	35	3.5	35	88	1	138	22	5	25	45	1.74
18079339--18079499	70	2.3	69	77	6	175	22	4	24	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18079477--18079577	7	15.0	7	71	17	63	22	0	27	48	1.57
18079473--18079593	14	9.2	13	72	16	72	21	0	26	51	1.54
18079511--18079600	20	4.8	20	69	25	72	21	0	27	51	1.48
18079448--18079607	27	6.0	26	80	5	160	21	1	27	49	1.60
18079478--18079608	7	19.6	7	68	16	55	20	1	28	49	1.58
18080932--18080965	5	6.8	5	100	0	68	0	20	0	79	0.73
18081376--18081454	41	2.0	41	90	7	126	37	24	6	31	1.80
18081959--18081987	3	9.7	3	100	0	58	65	0	34	0	0.93
18083136--18083216	31	2.7	30	80	5	83	53	9	2	34	1.48
18085680--18085744	27	2.5	25	85	5	76	20	20	26	33	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