genome.fa.s4.2.7.7.80.10.50.1000.16.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: 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  16  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)
5642067--5642196	58	2.2	59	84	9	169	33	26	4	35	1.77
5642009--5642175	87	1.9	87	90	2	264	33	29	4	32	1.77
5653915--5654718	92	8.9	92	92	3	1274	34	17	17	29	1.93
5654439--5654565	42	3.1	42	64	31	110	33	20	14	30	1.93
5654436--5654694	82	3.0	84	88	7	396	32	18	16	31	1.94
5655002--5655053	26	2.0	26	85	7	70	38	0	5	55	1.24
5654962--5655059	6	16.3	6	69	18	62	42	0	5	52	1.23
5654969--5655054	11	7.8	11	70	10	59	41	0	4	53	1.21
5654962--5655090	17	7.6	17	78	13	106	44	0	4	50	1.22
5657066--5657370	29	10.4	28	71	18	185	34	29	1	34	1.69
5657036--5657258	59	3.8	59	92	0	358	33	29	2	34	1.70
5657094--5657370	146	1.9	146	88	4	425	34	29	2	34	1.70
5657180--5657345	87	1.9	88	89	1	262	33	28	3	34	1.73
5657036--5657290	118	2.2	117	87	3	336	33	30	2	34	1.71
5662246--5662913	59	11.2	58	76	9	492	28	19	16	35	1.93
5662243--5662913	120	5.6	118	74	10	476	28	19	16	35	1.94
5664215--5664270	24	2.3	24	84	0	67	12	32	30	25	1.92
5664788--5664839	21	2.4	21	83	3	68	67	3	1	26	1.18
5666414--5667112	60	11.8	58	74	13	414	39	16	17	26	1.91
5666463--5667099	236	2.7	237	88	3	901	39	16	18	25	1.91
5670354--5670433	39	2.1	39	95	0	142	42	18	2	36	1.64
5670424--5670491	2	34.0	2	100	0	136	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5671787--5671831	23	2.0	23	86	8	65	62	0	0	37	0.96
5674867--5674916	16	3.2	16	75	13	50	44	4	4	48	1.40
5675709--5675741	14	2.5	13	90	9	50	21	24	18	36	1.95
5687235--5687267	17	1.9	17	88	11	50	54	6	6	33	1.50
5690484--5690508	3	8.3	3	100	0	50	0	32	0	68	0.90
5700135--5700186	27	1.9	27	100	0	104	51	3	1	42	1.31
5704910--5704959	5	10.2	5	93	4	84	76	2	22	0	0.89
5705271--5705301	3	10.3	3	100	0	62	67	0	32	0	0.91
5706328--5706396	30	2.4	28	83	11	86	43	1	4	50	1.30
5706335--5706392	30	2.0	29	89	3	89	46	1	3	48	1.29
5706674--5706719	22	2.3	21	79	17	53	50	2	10	36	1.50
5706679--5706719	22	2.0	21	86	13	59	48	2	9	39	1.49
5714655--5714705	20	2.5	20	78	6	59	74	17	0	7	1.05
5714676--5714730	23	2.3	24	75	3	58	76	10	1	10	1.10
5714673--5714730	12	4.9	12	78	4	64	75	12	1	10	1.11
5714743--5714796	11	4.9	11	77	6	56	66	29	1	1	1.12
5714735--5714822	33	2.6	34	86	12	137	67	23	4	4	1.29
5715425--5715451	5	5.4	5	100	0	54	37	0	18	44	1.50
5718008--5718032	2	12.5	2	100	0	50	52	0	0	48	1.00
5724644--5724684	20	2.0	20	85	9	55	60	4	9	24	1.47
5727468--5727564	47	1.9	52	84	12	132	50	0	4	45	1.20
5729268--5729299	13	2.5	13	94	0	55	37	0	15	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5735466--5735501	17	2.1	17	100	0	72	25	41	22	11	1.86
5754119--5754156	18	2.1	18	100	0	76	52	10	5	31	1.58
5757275--5757329	16	3.5	16	76	18	62	74	3	1	20	1.06
5757264--5757329	31	2.2	31	86	10	93	72	4	1	21	1.10
5757428--5757505	39	2.0	39	97	0	147	30	29	10	29	1.90
5761731--5761828	11	9.0	11	70	19	55	39	2	2	56	1.23
5761732--5761830	6	17.0	6	73	10	89	41	2	2	54	1.23
5761743--5761816	23	3.2	22	79	11	85	41	0	2	55	1.14
5763843--5763965	30	4.1	29	81	14	126	38	26	1	34	1.66
5763871--5764273	59	6.9	59	75	9	278	34	23	6	35	1.80
5770264--5770312	21	2.3	21	80	16	57	18	18	0	63	1.32
5770944--5771019	29	2.5	30	85	6	91	32	5	13	48	1.64
5775260--5775316	22	2.6	22	80	0	60	17	7	12	63	1.50
5776322--5776363	21	2.0	21	85	0	57	45	7	7	40	1.59
5777067--5777108	12	3.4	12	78	18	50	28	4	2	64	1.26
5777234--5777285	6	9.0	6	78	16	56	42	0	3	53	1.19
5777234--5777279	17	2.7	17	89	0	74	41	0	4	54	1.20
5777247--5777291	23	2.0	22	91	4	72	42	0	4	53	1.21
5779152--5779411	29	8.9	28	75	10	202	36	29	3	30	1.73
5779152--5779411	58	4.5	58	77	9	237	36	29	3	30	1.73
5780731--5780764	16	2.1	16	88	0	50	76	14	2	5	1.09
5783679--5783712	13	2.5	14	90	4	52	58	11	0	29	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5785624--5785707	22	3.6	23	73	15	82	51	1	1	46	1.16
5785626--5785710	24	3.5	24	79	9	68	51	1	1	45	1.16
5785626--5785701	23	3.3	22	80	10	89	51	1	1	46	1.17
5791902--5791933	17	1.9	16	93	6	55	0	12	12	75	1.06
5796134--5796167	17	2.0	17	100	0	68	17	23	29	29	1.97
5796370--5796447	29	2.7	29	92	5	124	48	0	1	50	1.09
5803518--5803557	3	13.3	3	100	0	80	67	0	0	32	0.91
5807170--5807198	7	4.1	7	100	0	58	55	0	0	44	0.99
5807657--5807718	30	2.1	28	85	5	79	38	6	1	53	1.37
5808362--5808419	30	1.9	30	85	0	80	29	6	5	58	1.46
5808376--5808461	31	2.8	31	80	7	77	34	9	1	54	1.40
5808489--5808530	14	2.9	14	77	19	50	50	0	0	50	1.00
5810467--5810552	44	2.0	41	86	6	118	52	5	8	33	1.55
5811254--5811486	123	1.9	123	87	1	342	33	18	27	21	1.96
5811251--5811519	41	6.6	41	80	2	272	33	18	27	20	1.96
5811254--5811519	123	2.2	123	83	2	338	33	18	27	21	1.96
5811930--5811969	16	2.5	16	92	8	64	32	10	30	27	1.89
5812139--5812289	56	2.6	57	79	8	171	52	4	1	41	1.30
5814754--5814875	56	2.2	56	80	7	131	38	13	7	40	1.72
5819424--5819525	23	4.4	23	88	3	152	43	22	21	12	1.86
5819424--5819543	46	2.6	46	83	7	154	42	21	23	12	1.87
5819378--5819522	69	2.1	66	83	13	186	43	20	23	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5819424--5819543	23	5.2	22	78	14	109	42	21	23	12	1.87
5826466--5826637	23	7.5	23	78	8	127	43	19	23	13	1.86
5826515--5826636	46	2.7	46	83	2	156	43	19	22	13	1.87
5826466--5826605	69	2.0	66	85	13	185	45	19	22	13	1.85
5832176--5832514	43	8.0	43	78	6	298	27	16	29	26	1.97
5840471--5840500	15	2.1	14	93	6	51	16	0	13	70	1.18
5843189--5843260	36	2.0	36	81	10	85	56	4	4	34	1.37
5843270--5843304	18	1.9	18	88	0	52	54	0	25	20	1.45
5847370--5847400	15	2.1	15	93	0	53	48	3	0	48	1.17
5847751--5847823	33	2.1	36	85	9	100	53	6	0	39	1.28
5855415--5855477	18	3.4	17	79	14	54	31	1	1	65	1.12
5855502--5855558	18	3.2	17	82	9	69	57	1	5	35	1.31
5855510--5855567	18	3.2	18	85	7	57	62	1	3	32	1.22
5855528--5855575	18	2.6	18	83	9	53	60	2	2	35	1.20
5863138--5863207	23	3.1	23	83	2	88	47	10	22	20	1.79
5865257--5865323	23	3.2	19	78	19	71	71	19	4	4	1.20
5865245--5865312	23	3.1	21	80	18	77	73	17	2	5	1.16
5865199--5865293	31	3.0	32	80	6	95	69	17	5	7	1.31
5865200--5865314	11	10.7	10	67	22	56	71	18	4	6	1.24
5865245--5865323	21	3.7	21	75	12	63	70	20	3	5	1.22
5867276--5867311	2	19.0	2	88	11	58	52	0	47	0	1.00
5867276--5867311	11	3.4	11	96	3	65	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5867276--5867314	13	3.0	13	85	14	62	53	0	46	0	1.00
5880935--5881142	69	3.0	69	78	6	217	23	26	11	37	1.89
5885703--5885731	14	2.1	14	100	0	58	51	20	13	13	1.75
5891078--5891112	4	9.0	4	87	6	54	2	0	22	74	0.95
5896333--5896359	7	3.9	7	100	0	54	59	40	0	0	0.98
5896827--5896856	15	2.0	15	93	0	51	76	3	20	0	0.92
5901037--5901099	24	2.6	24	79	0	72	30	12	7	49	1.69
5912539--5912590	17	3.1	17	88	0	77	48	1	0	50	1.12
5913386--5913437	15	3.6	15	76	10	54	51	5	7	34	1.54
5914632--5914874	30	8.2	30	71	14	116	38	21	3	37	1.70

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