genome.fa.s4.2.7.7.80.10.50.1000.1.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  1  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)
1--14495	7	2055.4	7	95	4	26107	43	42	0	14	1.45
14510--15128	7	88.9	7	98	0	992	18	56	24	0	1.41
64901--65031	68	1.9	69	92	3	221	11	12	30	45	1.77
65674--65729	26	2.2	26	90	0	85	46	10	10	32	1.73
66774--66803	15	2.0	15	100	0	60	26	0	0	73	0.84
69302--69429	15	8.7	14	67	14	53	28	0	25	45	1.59
69298--69421	22	5.6	22	74	7	108	28	0	25	45	1.59
69312--69427	30	3.9	28	75	15	92	28	0	24	46	1.58
71634--71880	62	4.0	59	77	8	190	28	18	16	36	1.93
71678--71886	63	3.4	62	80	5	210	28	17	16	37	1.92
71883--72090	114	1.8	113	88	3	319	37	14	15	32	1.88
72441--72671	116	2.0	110	94	4	399	34	14	18	32	1.91
79031--79062	4	8.0	4	100	0	64	25	0	25	50	1.50
82483--82527	18	2.6	16	82	10	54	15	6	4	73	1.21
82540--82591	23	2.2	24	89	6	79	11	26	15	46	1.80
88568--89098	140	3.9	139	80	8	579	27	17	21	32	1.96
88707--89120	126	3.2	126	81	9	479	26	17	22	33	1.96
88454--89120	266	2.5	267	85	0	825	27	17	21	33	1.96
91281--91310	15	1.9	16	93	6	53	66	3	0	30	1.07
101734--101797	31	2.1	31	87	0	92	48	10	17	23	1.78
105548--105654	36	3.0	36	94	0	178	32	12	40	14	1.84
109837--110025	23	8.5	23	73	12	144	42	21	24	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109866--109940	39	1.9	39	91	0	123	44	21	22	12	1.85
109905--110025	48	2.6	46	85	7	163	39	22	25	12	1.89
112854--112908	24	2.3	24	83	0	65	27	12	10	49	1.74
114456--114480	8	3.1	8	100	0	50	64	12	12	12	1.51
124615--124654	19	2.0	20	85	4	55	32	7	2	57	1.40
131424--131544	23	5.2	23	82	11	156	11	25	23	39	1.88
131424--131544	48	2.6	46	87	7	172	11	25	23	39	1.88
131509--131583	39	1.9	39	91	0	123	12	22	21	44	1.85
131548--131612	23	2.9	23	83	2	87	10	23	18	47	1.79
132511--132547	18	2.1	18	100	0	74	40	5	21	32	1.76
134171--134246	40	2.0	38	82	12	93	30	25	22	22	1.99
135098--135122	9	2.8	9	100	0	50	0	12	8	80	0.92
135608--135666	24	2.5	24	85	0	82	47	11	13	27	1.78
138647--138709	33	1.9	33	83	6	83	36	15	6	41	1.73
138908--138964	30	1.9	30	100	0	114	42	22	14	21	1.88
139057--139128	30	2.4	31	83	6	94	45	16	15	22	1.84
143979--144033	24	2.3	24	93	0	92	52	7	10	29	1.63
145753--145792	15	2.5	16	84	12	55	67	25	7	0	1.16
145764--145798	15	2.3	15	100	0	70	57	31	11	0	1.34
177315--177563	91	2.7	90	84	6	297	36	20	10	32	1.87
177685--177774	19	4.8	18	70	24	62	71	1	2	25	1.05
177702--177758	29	2.0	29	82	0	69	68	1	0	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177926--178104	91	2.0	89	80	2	196	34	10	17	37	1.84
178357--178413	15	3.5	15	71	17	51	49	0	1	49	1.11
178359--178395	19	1.9	19	88	0	56	48	0	0	51	1.00
178871--178909	14	2.7	15	84	11	55	35	5	5	53	1.45
184829--184916	43	2.0	43	93	0	149	17	25	27	30	1.97
196529--196627	51	1.9	51	100	0	198	33	14	22	30	1.93
207874--207967	46	2.0	46	97	0	179	29	8	15	45	1.76
219790--219829	21	1.9	21	89	0	62	27	15	5	52	1.63
235573--235607	12	2.9	12	86	0	52	42	28	5	22	1.76
239986--240020	12	2.9	12	100	0	70	40	25	8	25	1.84
244819--245113	105	2.8	106	81	6	298	33	15	14	36	1.88
244855--245048	55	3.6	55	80	6	218	30	15	17	36	1.91
246017--246080	30	2.1	30	94	0	110	62	4	6	26	1.39
267598--267631	16	2.1	17	89	10	54	70	0	0	29	0.87
277529--277570	14	3.1	14	83	10	52	35	0	0	64	0.94
291084--291141	29	2.0	29	86	3	82	46	5	10	37	1.60
295281--295330	2	27.0	2	80	15	63	50	0	0	50	1.00
303543--303698	29	5.3	29	65	17	88	36	3	27	32	1.75
303541--303700	59	2.7	59	86	0	223	36	4	27	31	1.77
303606--303709	29	3.5	28	71	17	77	35	2	25	35	1.71
303548--303738	59	3.2	58	80	5	170	39	3	24	33	1.71
303721--303802	30	2.7	31	83	5	114	35	3	24	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304826--304891	3	22.0	3	86	6	89	37	0	0	62	0.96
305584--305616	17	1.9	17	93	0	57	39	0	3	57	1.14
305644--305685	17	2.5	17	88	0	66	52	2	0	45	1.13
309030--309060	2	15.5	2	100	0	62	48	0	0	51	1.00
309072--309106	7	5.0	7	96	0	61	45	0	54	0	0.99
311531--311581	16	3.3	16	74	20	54	25	5	17	50	1.68
318086--318148	24	2.6	24	82	5	74	53	12	9	23	1.67
322938--322977	21	1.9	21	90	10	64	27	10	10	52	1.66
323426--323565	51	2.8	51	86	1	192	40	11	12	35	1.80
327627--327712	27	3.2	27	89	0	127	19	23	34	22	1.96
327647--327698	15	3.7	15	77	15	65	23	25	30	21	1.99
327641--327712	12	5.5	12	71	18	54	22	25	31	20	1.98
335532--335603	24	3.1	23	76	8	65	54	1	1	43	1.17
335532--335595	22	2.8	23	80	4	67	54	1	1	42	1.19
337156--337180	2	12.5	2	100	0	50	52	0	0	48	1.00
337233--337361	63	2.1	63	81	7	147	37	17	11	32	1.86
342584--342659	38	2.0	38	100	0	152	39	44	7	7	1.63
345579--345620	16	2.7	16	82	14	52	42	0	4	52	1.22
348860--348891	11	2.9	11	95	0	55	31	0	6	62	1.20
350219--350356	30	4.6	30	89	2	199	35	24	3	36	1.73
350345--350431	30	2.9	30	70	14	81	28	31	6	33	1.84
350247--350443	60	3.3	58	81	8	184	32	26	4	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354646--354671	2	13.0	2	100	0	52	50	0	0	50	1.00
364182--364206	4	6.2	4	100	0	50	72	0	0	28	0.86
364230--364280	22	2.3	22	83	10	59	49	0	1	49	1.12
370804--370832	13	2.2	13	100	0	58	37	41	6	13	1.72
370925--370958	14	2.5	13	86	9	50	26	2	0	70	1.01
371194--371220	13	2.1	13	100	0	54	29	7	22	40	1.81
388754--388782	15	1.9	15	100	0	58	6	3	6	82	0.93
394643--394670	5	5.6	5	100	0	56	0	82	17	0	0.68
397056--397134	20	4.0	21	74	8	58	46	3	6	43	1.47
397090--397147	30	1.9	30	86	13	84	50	1	3	44	1.29
398181--398237	30	1.9	30	85	0	78	40	19	1	38	1.62
398238--398388	29	5.2	30	69	19	106	33	30	1	33	1.69
398212--398360	29	5.1	29	69	22	100	34	28	1	34	1.66
398305--398389	28	3.0	28	68	25	79	34	32	2	30	1.71
398211--398522	58	5.4	59	85	4	386	32	29	3	34	1.75
406537--406583	12	3.9	12	82	17	62	59	2	0	38	1.09
406537--406583	25	1.9	24	95	4	85	59	2	0	38	1.09
407158--407188	2	15.5	2	93	0	53	48	0	3	48	1.17
438623--438731	55	2.0	55	92	0	182	26	18	17	37	1.93
447630--447669	2	20.0	2	100	0	80	50	0	0	50	1.00
449133--449166	16	2.1	16	100	0	68	47	17	11	23	1.81
451309--451390	33	2.6	33	80	14	86	53	12	0	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451674--451713	21	2.0	19	85	9	53	40	0	2	57	1.12
459351--459426	30	2.5	31	81	14	86	48	2	0	48	1.15
475806--475878	35	2.1	35	94	0	128	24	12	16	46	1.81
478435--478473	17	2.3	17	86	8	53	46	23	12	17	1.83
482451--482579	23	5.5	23	82	5	134	44	21	22	11	1.84
490234--490273	12	3.2	12	92	7	62	57	10	15	17	1.64
495287--495324	3	12.7	3	100	0	76	65	0	0	34	0.93
503436--503468	2	17.0	2	93	6	59	48	0	0	51	1.00
508110--508146	16	2.3	16	90	0	56	24	5	16	54	1.63
514133--514171	17	2.3	17	86	0	51	17	10	25	46	1.80

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