genome.fa.s4.2.7.7.80.10.50.1000.18.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  18  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)
6197738--6197765	5	5.6	5	100	0	56	78	0	0	21	0.75
6209212--6209258	16	2.9	16	72	15	51	68	0	0	31	0.90
6212500--6212555	29	1.9	29	82	7	69	55	0	3	41	1.17
6212552--6212624	34	2.2	33	85	7	96	45	4	8	42	1.53
6219023--6219058	3	12.0	3	93	0	63	2	33	0	63	1.08
6220532--6220593	29	2.1	29	82	5	72	25	6	9	58	1.54
6241829--6241885	19	2.9	19	84	7	71	54	1	5	38	1.33
6252431--6252500	33	2.1	33	97	0	131	34	21	20	24	1.97
6256802--6256859	21	2.8	21	86	5	73	27	22	17	32	1.96
6267301--6267342	2	21.5	2	80	4	50	45	0	7	47	1.30
6267351--6267400	6	8.3	6	100	0	100	16	16	50	18	1.79
6270691--6270721	2	16.0	2	93	6	55	51	0	0	48	1.00
6272383--6272623	43	5.7	43	75	6	170	41	19	15	24	1.90
6278032--6278089	21	2.8	21	81	5	64	43	13	20	22	1.87
6286408--6286476	31	2.3	31	82	7	79	46	8	4	40	1.55
6286567--6286666	33	3.0	33	98	0	191	28	6	46	20	1.74
6286986--6287056	12	5.8	12	69	12	54	29	0	0	70	0.88
6289409--6289439	16	1.9	16	93	0	53	54	6	0	38	1.26
6289559--6289604	17	2.4	20	86	13	62	52	0	0	47	1.00
6289568--6289639	17	4.1	17	75	8	54	43	1	1	54	1.17
6295384--6295426	18	2.4	18	80	7	52	46	2	0	51	1.13
6295970--6296030	21	3.0	21	76	13	65	29	1	4	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6301478--6301603	67	1.9	67	93	0	216	37	19	16	26	1.93
6301479--6301617	67	2.1	67	88	0	206	38	20	15	25	1.92
6305174--6305235	31	2.0	31	87	0	88	22	16	16	45	1.85
6305460--6305502	16	2.6	17	78	10	54	48	4	0	46	1.22
6307332--6307388	14	3.9	15	80	15	66	70	5	0	24	1.08
6307314--6307389	30	2.5	31	82	14	97	67	5	1	26	1.20
6326501--6326591	38	2.4	36	75	12	85	54	0	6	38	1.26
6326866--6326991	62	2.0	62	93	0	216	38	7	14	39	1.75
6334923--6335000	39	1.9	41	84	7	106	30	2	55	11	1.49
6335046--6335119	30	2.5	30	97	0	139	33	14	25	25	1.94
6335046--6335145	30	3.3	30	90	2	121	33	14	25	28	1.94
6337735--6338201	228	2.0	228	92	0	763	26	18	18	36	1.94
6339268--6339300	17	1.9	17	100	0	66	24	27	0	48	1.51
6340910--6340951	14	3.1	14	79	3	50	33	4	2	59	1.31
6352302--6352392	31	3.0	31	79	10	89	47	8	8	35	1.66
6353524--6353580	19	3.1	19	85	7	73	56	7	0	36	1.27
6353558--6353627	35	2.0	35	85	0	95	55	5	0	38	1.24
6360166--6360220	11	4.8	12	79	18	64	50	0	0	49	1.00
6360166--6360221	13	4.5	13	86	10	73	50	0	0	50	1.00
6360155--6360220	21	3.0	21	76	18	62	50	0	0	50	1.00
6363222--6363323	49	2.1	49	94	0	177	32	18	14	34	1.91
6366682--6366744	20	3.3	19	80	10	67	50	0	3	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6366695--6366746	20	2.7	20	85	8	72	48	0	1	50	1.12
6367230--6367346	59	2.0	57	85	9	155	46	10	14	29	1.77
6368259--6368317	30	2.0	30	93	0	100	28	6	8	55	1.55
6368359--6368409	25	2.1	24	85	10	68	35	1	5	56	1.35
6368432--6368488	25	2.3	25	82	8	73	57	0	0	42	0.98
6368422--6368448	2	13.5	2	100	0	54	48	0	0	51	1.00
6376794--6376983	45	4.2	44	80	4	191	31	20	12	36	1.89
6376818--6376983	90	1.8	90	84	7	230	31	19	13	34	1.91
6382539--6382616	31	2.5	31	79	8	88	47	1	5	46	1.33
6382591--6382636	22	2.0	23	83	4	58	47	0	0	52	1.00
6386214--6386272	3	19.7	3	100	0	118	66	0	33	0	0.92
6386636--6386708	4	18.2	4	91	0	101	26	2	24	46	1.66
6393093--6393145	20	2.7	20	81	0	61	60	1	7	30	1.35
6393715--6393750	18	1.9	18	88	5	54	41	2	0	55	1.14
6393715--6393760	14	3.0	14	77	22	56	41	2	0	56	1.11
6394065--6394115	25	2.1	24	85	3	66	31	0	0	68	0.90
6396446--6396514	30	2.4	30	80	4	79	37	8	14	39	1.77
6398433--6398485	16	3.2	16	71	10	52	18	1	11	67	1.30
6399699--6399725	6	4.5	6	100	0	54	33	18	33	14	1.92
6403540--6403602	31	2.0	31	93	0	108	28	17	11	42	1.83
6406558--6406616	28	2.1	28	93	0	100	35	16	13	33	1.88
6411560--6411605	23	2.0	23	91	0	74	34	26	17	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6424074--6424618	137	4.0	137	90	4	804	46	5	6	41	1.52
6424074--6424618	272	2.0	269	90	3	853	46	5	6	41	1.52
6424606--6424723	60	2.0	60	91	3	193	36	11	7	44	1.70
6428126--6428160	17	2.0	18	94	5	63	40	11	0	48	1.39
6436114--6436151	2	19.0	2	100	0	76	50	0	0	50	1.00
6440468--6440503	17	2.2	17	90	9	58	61	5	0	33	1.19
6447164--6447284	57	2.1	58	83	7	158	28	17	6	47	1.72
6447837--6447884	21	2.3	21	92	0	78	22	20	20	35	1.96
6450676--6450701	2	13.0	2	100	0	52	50	0	50	0	1.00
6451541--6451578	20	1.9	20	94	0	67	21	10	13	55	1.67
6451905--6452002	47	2.1	47	90	0	151	36	21	13	28	1.91
6453803--6453869	35	1.9	34	84	6	89	61	4	4	29	1.36
6454881--6454935	26	2.0	26	83	13	67	45	3	10	40	1.57
6455250--6455298	21	2.4	20	79	3	53	57	0	2	40	1.10
6455368--6455417	23	2.3	23	80	16	61	20	16	26	38	1.92
6457472--6457507	17	2.2	16	90	5	54	44	2	5	47	1.41
6457594--6457641	17	2.8	17	93	0	78	47	10	14	27	1.76
6458942--6458987	24	1.9	24	95	0	83	28	15	21	34	1.94
6465414--6465727	156	2.0	156	95	0	565	20	26	18	35	1.95
6465570--6466014	231	1.9	231	96	0	827	21	25	17	34	1.96
6468870--6468894	2	12.5	2	100	0	50	48	0	0	52	1.00
6469499--6469527	12	2.4	12	100	0	58	37	0	10	51	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6472449--6472533	41	2.1	41	100	0	170	37	11	27	23	1.90
6474236--6474314	22	3.5	22	87	3	113	13	21	27	36	1.92
6478750--6478799	26	1.9	26	88	8	75	46	0	6	48	1.27
6479351--6479478	61	2.1	59	84	8	161	49	12	14	24	1.77
6484886--6484950	32	2.1	31	85	8	87	56	3	7	32	1.43
6492897--6492955	24	2.5	24	88	0	91	49	11	13	25	1.76
6494633--6494659	2	13.5	2	100	0	54	48	0	0	51	1.00
6496609--6496743	58	2.3	61	83	7	172	43	1	2	52	1.22
6519500--6519569	16	4.4	16	87	0	95	35	1	30	32	1.67
6519546--6519656	44	2.6	40	72	21	93	28	3	28	38	1.74
6519783--6519870	26	3.2	26	68	16	68	50	2	0	47	1.13
6519744--6519894	58	2.6	59	87	6	218	53	1	1	43	1.17
6524065--6524112	18	2.6	18	86	6	60	33	8	10	47	1.68
6534806--6534978	85	2.0	85	96	0	319	34	10	20	35	1.87
6538009--6538127	58	2.1	57	87	4	168	47	18	0	33	1.49
6542165--6542198	2	17.0	2	100	0	68	50	0	0	50	1.00
6547227--6547507	127	2.2	127	88	2	422	35	13	5	45	1.68
6558146--6558187	21	2.0	21	100	0	84	52	9	9	28	1.65
6561895--6561961	19	3.5	19	82	10	75	53	5	0	40	1.25
6561931--6562006	19	4.2	19	70	21	65	57	1	0	40	1.07
6561978--6562025	10	4.8	10	85	14	64	66	0	0	33	0.92
6561964--6562025	10	6.0	11	79	18	55	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6561931--6562025	21	4.5	21	72	19	81	60	1	0	38	1.04
6567593--6567646	22	2.5	22	75	6	56	48	3	9	38	1.53
6574757--6574802	19	2.3	20	85	10	60	39	2	6	52	1.40
6579613--6580033	211	2.0	212	91	1	684	30	1	10	56	1.44
6582701--6582785	28	3.1	27	80	8	75	35	1	9	54	1.41
6582735--6582785	26	2.0	25	84	3	66	31	1	5	60	1.31
6582735--6582785	25	2.0	26	84	3	68	31	1	5	60	1.31
6582797--6582871	15	5.1	14	75	13	62	24	0	22	53	1.46
6582805--6582878	28	2.6	28	78	18	80	24	0	24	51	1.49
6582797--6582878	14	5.7	14	74	20	71	23	0	24	52	1.47

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