genome.fa.s9.2.7.7.80.10.50.1000.16.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  16  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)
6688740--6688820	30	2.7	31	79	7	87	25	11	17	45	1.81
6696832--6696876	17	2.8	16	83	6	56	46	0	8	44	1.34
6696823--6696922	53	1.9	52	86	11	143	42	1	9	48	1.41
6701591--6701655	24	2.7	24	82	0	76	40	3	4	52	1.38
6703483--6703649	89	1.9	89	82	1	210	25	10	11	52	1.69
6704563--6704599	10	3.6	10	92	3	56	35	0	0	64	0.94
6704578--6704613	18	2.1	18	89	5	56	41	2	0	55	1.14
6705016--6705059	20	2.2	20	88	8	63	45	2	4	47	1.35
6710788--6710826	20	1.9	21	89	5	62	35	0	20	43	1.52
6720850--6721048	100	2.0	100	90	0	317	38	21	14	25	1.91
6726279--6726313	18	1.9	18	94	0	61	37	5	2	54	1.39
6729799--6729992	90	2.1	91	83	4	241	24	17	13	44	1.85
6730158--6730298	58	2.4	58	87	0	201	46	9	17	26	1.78
6730158--6730315	58	2.7	58	87	0	190	47	9	17	25	1.77
6742771--6742820	22	2.3	22	79	6	57	56	0	12	32	1.36
6744074--6744115	11	3.9	11	81	6	59	23	2	7	66	1.28
6744074--6744114	21	2.0	21	90	0	64	24	2	4	68	1.22
6744099--6744131	17	1.9	17	88	11	50	21	0	6	72	1.05
6744557--6744603	21	2.2	22	77	11	53	34	2	2	61	1.20
6744566--6744645	27	2.8	28	77	9	72	38	1	2	57	1.20
6747027--6747071	18	2.5	19	80	20	53	64	0	2	33	1.06
6747168--6747219	19	2.9	17	81	16	52	53	3	1	40	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6747368--6747449	42	2.0	42	92	0	137	50	13	3	32	1.59
6747368--6747466	42	2.4	42	85	0	117	46	12	4	37	1.60
6747484--6747537	21	2.5	22	76	11	58	40	0	3	55	1.17
6750586--6750627	4	10.5	4	100	0	84	50	23	0	26	1.50
6755783--6755863	41	2.0	42	92	7	139	41	3	12	41	1.60
6763196--6763225	14	2.1	14	100	0	60	60	0	40	0	0.97
6767522--6767573	27	1.9	27	84	0	68	23	34	25	17	1.96
6767874--6767907	17	2.0	17	94	0	59	44	0	2	52	1.16
6770216--6770254	12	3.2	12	79	13	53	15	33	33	17	1.92
6770225--6770259	18	1.9	18	94	0	61	17	34	34	14	1.90
6770800--6770875	26	2.8	26	78	4	71	56	10	1	31	1.41
6773648--6773708	26	2.4	26	86	2	79	16	24	4	54	1.62
6774762--6774803	11	4.2	11	77	22	56	40	0	0	59	0.97
6776561--6776613	27	2.0	27	85	10	74	26	0	7	66	1.18
6776609--6776670	28	2.2	28	82	5	72	45	0	3	51	1.17
6781266--6781444	90	2.0	89	97	1	340	46	15	5	32	1.68
6791059--6791116	31	1.9	30	86	6	82	60	0	1	37	1.07
6794313--6794537	61	3.8	60	83	5	253	32	20	13	33	1.92
6795973--6796005	3	11.0	3	100	0	66	33	0	0	66	0.92
6798439--6798523	10	8.7	10	76	11	70	67	1	1	30	1.06
6798439--6798482	19	2.2	21	92	8	74	70	0	0	29	0.88
6798441--6798533	10	9.9	9	72	15	55	67	1	1	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6798472--6798510	20	2.0	20	100	0	78	66	0	0	33	0.92
6803430--6803456	2	13.5	2	100	0	54	51	0	0	48	1.00
6818218--6818252	16	2.2	16	100	0	70	25	17	31	25	1.97
6818970--6819046	30	2.5	31	79	6	95	49	1	1	48	1.17
6820665--6820852	60	3.1	60	84	5	207	23	17	11	47	1.79
6820696--6820802	31	3.6	28	72	15	99	27	16	9	46	1.78
6821062--6821202	31	4.6	31	76	7	126	49	10	12	26	1.73
6821012--6821202	91	2.1	91	80	5	217	49	12	12	25	1.75
6834232--6834278	23	2.0	24	87	4	69	42	2	2	53	1.25
6834263--6834317	28	1.9	29	85	3	76	34	0	3	61	1.13
6841621--6841687	29	2.3	30	84	2	82	28	7	4	59	1.44
6844527--6844572	24	2.0	24	83	8	60	36	15	6	41	1.73
6846098--6846138	2	20.5	2	84	0	55	2	43	4	48	1.37
6846097--6846131	12	2.9	12	100	0	70	0	42	8	48	1.33
6847671--6847699	4	7.2	4	100	0	58	48	0	27	24	1.51
6853608--6853634	2	13.5	2	100	0	54	48	0	0	51	1.00
6858008--6858045	5	7.6	5	100	0	76	0	0	78	21	0.74
6860414--6860470	18	3.2	18	74	16	57	68	3	0	28	1.06
6860551--6860598	3	15.7	3	79	12	53	62	4	0	33	1.14
6861131--6861204	22	3.2	22	72	14	60	54	5	0	40	1.24
6862589--6862655	31	2.1	32	83	2	82	49	8	16	25	1.74
6862606--6862672	29	2.2	29	84	10	91	53	8	13	23	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6868575--6868616	22	1.9	22	95	0	75	30	7	19	42	1.78
6881587--6881611	9	2.8	9	100	0	50	20	0	8	72	1.10
6889565--6889627	27	2.3	27	94	0	108	15	31	33	19	1.93
6889566--6889646	27	3.0	27	85	3	101	18	30	29	20	1.97
6889753--6889793	20	1.9	23	85	14	61	60	0	7	31	1.24
6889798--6889928	57	2.4	55	79	12	144	57	5	1	35	1.31
6889994--6890054	27	2.3	27	94	0	104	14	24	39	21	1.91
6890115--6890179	26	2.4	27	82	7	78	52	3	23	21	1.61
6892934--6892991	28	2.1	28	83	6	73	36	0	12	51	1.39
6892983--6893032	26	1.9	26	83	0	64	32	0	10	58	1.31
6893098--6893144	6	7.8	6	86	9	69	65	14	2	17	1.36
6893577--6893607	6	5.2	6	100	0	62	16	32	35	16	1.91
6895462--6895489	13	2.2	13	100	0	56	50	0	0	50	1.00
6895481--6895512	16	2.1	16	94	5	57	59	0	0	40	0.97
6895558--6895590	10	3.3	10	100	0	66	0	21	18	60	1.36
6909529--6909604	39	1.9	39	83	0	98	43	13	9	34	1.75
6922648--6922694	15	2.9	16	78	6	51	55	4	2	38	1.31
6927665--6927717	26	2.1	26	89	6	83	33	9	3	52	1.52
6928409--6928498	31	2.9	31	84	1	126	26	12	10	51	1.71
6928811--6928860	13	4.0	12	82	7	64	60	8	0	32	1.26
6928815--6928865	25	2.1	24	92	3	84	66	5	0	27	1.14
6930760--6930790	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6932158--6932198	9	4.7	9	80	14	50	26	0	2	70	0.99
6933254--6933282	13	2.2	13	100	0	58	65	6	6	20	1.40
6934071--6934153	31	2.7	30	85	7	103	22	13	16	46	1.82
6934494--6934602	10	11.8	9	67	18	55	63	3	0	32	1.18
6934504--6934572	10	7.1	10	73	14	56	65	4	1	28	1.21
6934570--6934607	20	1.9	20	84	10	51	57	2	2	36	1.26
6935046--6935263	10	22.6	9	65	18	57	33	2	3	60	1.29
6935136--6935196	29	2.1	29	85	8	81	37	1	1	59	1.17
6935241--6935311	10	7.3	10	70	17	51	22	1	2	73	1.05
6935213--6935309	38	2.6	36	73	12	90	26	2	2	69	1.11
6935240--6935314	19	4.0	19	73	20	59	24	1	4	70	1.12
6942918--6943013	33	3.1	33	63	34	86	51	3	12	33	1.55
6942895--6943013	59	2.0	59	100	0	238	52	3	11	31	1.54
6946736--6946781	14	3.5	14	77	17	62	21	17	2	58	1.49
6946732--6946781	25	2.0	25	100	0	100	20	16	4	60	1.52
6952323--6952379	29	2.0	28	86	6	80	7	8	22	61	1.50
6957466--6957730	131	2.0	133	83	7	335	42	16	9	31	1.80
6960709--6960781	28	2.6	28	74	20	71	35	2	2	58	1.26
6961473--6961527	28	1.9	29	85	3	76	36	5	12	45	1.66
6964836--6964910	31	2.5	31	82	10	93	46	20	12	21	1.82
6966444--6966728	51	5.6	51	87	4	416	31	22	12	33	1.91
6966444--6966729	100	2.8	102	91	2	452	31	22	12	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6968153--6968227	31	2.5	31	87	10	102	20	10	21	48	1.79
6973353--6973402	8	6.8	8	84	13	54	36	0	0	64	0.94
6973381--6973406	8	3.2	8	100	0	52	46	0	0	53	1.00
6973352--6973419	28	2.4	28	82	4	84	35	0	0	64	0.94
6980869--6980920	23	2.3	22	75	12	52	50	1	7	40	1.42
6984528--6984552	1	25.0	1	100	0	50	0	0	0	100	0.00
6986763--6986804	22	1.9	22	85	0	57	64	4	0	30	1.14
6989212--6989241	15	2.0	15	93	0	51	26	6	3	63	1.35
6991443--6991503	31	2.0	30	87	3	86	42	26	8	22	1.81
6992583--6992631	25	2.0	25	95	0	89	36	26	18	18	1.94

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