genome.fa.s4.2.7.7.80.10.50.1000.42.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  42  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)
12792777--12792943	59	2.8	59	89	5	248	31	29	3	35	1.75
12809047--12809086	11	3.6	11	86	10	55	22	0	0	77	0.77
12810311--12810511	76	2.6	76	85	5	255	30	10	9	49	1.69
12822161--12822269	50	2.2	50	84	0	146	41	15	22	21	1.90
12822347--12822869	40	13.3	40	68	12	217	30	25	19	24	1.98
12822326--12822874	79	7.0	79	83	5	641	30	25	18	25	1.98
12822326--12822874	238	2.3	233	82	6	676	30	25	18	25	1.98
12823364--12823396	11	3.1	11	86	8	50	21	0	0	78	0.75
12823362--12823394	16	2.2	15	89	10	50	18	0	0	81	0.68
12824622--12824828	69	2.9	70	89	6	292	31	10	8	49	1.67
12824626--12824895	76	3.6	76	83	6	281	30	10	9	50	1.68
12837242--12837677	148	2.9	151	94	2	779	33	20	10	36	1.87
12838708--12838745	20	1.9	20	94	0	67	26	18	2	52	1.58
12838848--12838875	8	3.5	8	100	0	56	53	14	0	32	1.41
12845938--12845998	30	2.0	30	93	0	104	26	11	24	37	1.89
12853312--12853355	22	2.0	22	100	0	88	31	9	4	54	1.52
12856709--12856869	24	6.8	24	72	7	94	41	11	21	25	1.87
12856709--12856869	48	3.4	48	74	5	148	41	11	21	25	1.87
12856828--12856884	24	2.4	24	78	0	60	50	14	15	19	1.77
12859959--12859986	6	4.7	6	100	0	56	67	0	0	32	0.91
12869121--12869168	12	4.0	12	80	0	60	58	10	4	27	1.49
12877707--12877753	10	4.7	10	76	10	51	53	0	4	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12877942--12878003	32	2.0	32	83	3	81	41	6	0	51	1.27
12877980--12878028	26	1.9	26	87	4	73	48	4	2	44	1.33
12885511--12885553	20	2.2	19	88	12	61	39	2	4	53	1.34
12888032--12888077	24	1.9	24	86	0	65	36	15	8	39	1.78
12892012--12892289	154	1.8	153	88	2	432	28	22	16	33	1.95
12892012--12892289	51	5.4	51	91	1	414	28	22	16	33	1.95
12896345--12896371	2	13.5	2	100	0	54	48	0	0	51	1.00
12897192--12897484	51	5.6	51	83	4	318	35	16	20	27	1.94
12897196--12897446	104	2.4	102	85	2	340	33	16	20	29	1.95
12902703--12902794	46	2.0	46	95	2	168	39	8	3	48	1.50
12906957--12906992	18	2.0	18	88	0	54	58	5	0	36	1.22
12907597--12907733	74	1.9	72	87	3	202	44	20	8	26	1.80
12910348--12910390	13	3.5	12	78	15	52	69	0	0	30	0.88
12917753--12917845	28	3.4	26	76	12	80	60	2	3	34	1.25
12917806--12917854	18	2.7	18	87	0	71	55	2	4	38	1.31
12917835--12917894	21	2.8	21	82	7	77	61	0	3	35	1.12
12917808--12917897	19	4.6	19	77	13	69	61	1	3	34	1.20
12917752--12917897	10	15.1	10	69	18	69	61	1	2	34	1.19
12918319--12918446	10	13.1	10	67	18	56	34	2	1	61	1.18
12918289--12918425	29	4.6	30	72	12	95	34	2	1	61	1.20
12918755--12918791	19	1.9	19	89	10	58	54	2	2	40	1.29
12918755--12918804	19	2.7	18	82	14	57	54	2	4	40	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12918875--12918927	23	2.2	24	90	3	81	52	5	0	41	1.25
12921890--12921972	20	4.4	19	75	13	66	38	2	0	59	1.11
12921890--12921943	20	2.8	20	86	13	69	35	1	0	62	1.06
12921891--12922021	47	2.7	46	75	11	122	32	3	1	62	1.20
12925040--12925087	26	1.9	24	87	8	69	22	6	8	62	1.46
12925462--12925508	13	3.8	12	83	8	58	21	2	2	74	1.03
12931248--12931287	13	3.2	13	82	10	57	57	2	7	32	1.40
12931411--12931461	20	2.5	20	78	6	59	43	11	7	37	1.71
12934945--12935024	26	3.4	25	72	21	73	31	18	22	27	1.97
12934972--12935040	26	2.7	26	88	4	95	26	18	26	28	1.98
12946584--12946641	15	3.8	15	80	15	66	68	0	29	1	0.99
12946583--12946641	30	1.9	31	86	10	86	67	0	28	3	1.06
12947026--12947066	17	2.4	17	87	0	55	21	9	12	56	1.65
12947693--12947720	2	14.0	2	100	0	56	50	0	0	50	1.00
12948075--12948139	32	2.0	32	90	0	103	16	12	18	52	1.74
12949259--12949307	23	2.1	24	84	3	64	28	16	8	46	1.75
12954850--12954889	19	2.1	19	90	0	62	15	20	20	45	1.86
12957722--12957797	40	1.9	40	100	0	152	28	6	13	51	1.65
12961394--12961436	21	2.0	22	81	4	52	53	0	9	37	1.33
12961859--12961941	40	2.1	40	100	0	166	16	16	28	37	1.91
12961937--12961963	2	13.5	2	100	0	54	51	0	0	48	1.00
12963711--12963754	22	2.1	21	87	8	63	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12966432--12966742	136	2.3	132	85	6	407	30	12	29	27	1.92
12970646--12970711	30	2.2	30	91	0	105	45	13	7	33	1.72
12971306--12971351	23	2.0	23	82	0	56	34	13	17	34	1.88
12971584--12971666	42	2.0	42	85	4	114	48	20	0	31	1.50
12980678--12980712	16	2.2	16	89	0	52	42	22	14	20	1.88
12986790--12986833	19	2.3	20	80	11	56	29	4	0	65	1.12
12996907--12996966	31	1.9	31	86	0	84	26	20	18	35	1.95
13000523--13000548	2	13.0	2	100	0	52	50	0	0	50	1.00
13001115--13001155	20	2.0	21	86	13	59	17	17	21	43	1.87
13002358--13002575	37	5.9	36	81	8	224	38	33	15	12	1.86
13002406--13002497	16	5.1	16	65	27	51	38	33	17	10	1.85
13002357--13002582	74	3.1	74	85	1	294	38	32	15	13	1.87
13002365--13002571	111	1.9	111	84	4	283	38	32	15	12	1.86
13004080--13004118	15	2.6	15	87	0	60	71	2	2	23	1.10
13004070--13004121	4	13.2	4	76	11	54	69	1	1	26	1.10
13004789--13004872	21	4.0	21	76	9	73	32	25	15	27	1.95
13020747--13020895	59	2.5	59	85	1	201	50	10	14	24	1.74
13021531--13021596	32	2.1	32	94	0	114	48	13	15	22	1.80
13021757--13021811	23	2.4	23	96	0	101	5	23	23	47	1.72
13022840--13022879	17	2.3	19	79	16	50	27	5	7	60	1.45
13029346--13029462	58	2.0	58	93	0	198	32	17	11	38	1.86
13029447--13029526	39	2.0	40	95	2	144	30	22	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13029451--13029543	39	2.4	38	85	7	107	30	23	17	29	1.97
13035874--13035952	16	4.9	17	75	15	62	37	5	7	49	1.53
13035861--13035952	33	2.8	34	77	11	86	35	4	10	48	1.58
13039519--13039909	198	2.0	198	84	0	512	35	16	14	34	1.89
13040980--13041119	55	2.5	55	85	0	190	51	14	7	26	1.69
13041328--13041365	17	2.2	18	81	13	53	21	21	0	57	1.40
13042742--13042944	45	4.5	45	79	4	203	34	14	21	29	1.93
13042742--13042944	90	2.3	90	79	3	228	34	14	21	29	1.93
13042902--13043005	31	3.4	30	88	5	136	36	14	20	28	1.92
13051514--13051662	69	2.1	70	83	3	185	28	16	16	37	1.91
13068403--13068442	20	2.0	20	100	0	80	40	10	15	35	1.80
13070107--13070218	52	2.2	52	85	3	145	42	11	20	25	1.85
13070419--13070471	13	3.8	14	82	9	72	39	3	1	54	1.29
13070423--13070466	14	3.2	14	87	3	63	36	4	2	56	1.32
13070456--13070499	22	2.0	22	90	0	70	36	6	4	52	1.49
13070542--13070566	2	12.5	2	100	0	50	48	0	0	52	1.00
13071661--13071720	29	2.1	27	84	6	75	55	6	10	28	1.58
13074891--13074954	30	2.1	30	97	0	119	20	21	6	51	1.69
13076634--13076703	28	2.5	28	93	4	115	32	24	20	22	1.97
13079124--13079219	50	1.9	49	87	6	140	26	17	18	37	1.93
13080906--13080948	11	3.8	11	80	17	52	30	2	2	65	1.18
13083065--13083110	23	2.0	23	83	12	58	19	19	4	56	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13084976--13085008	14	2.4	14	90	5	50	33	0	6	60	1.21
13085022--13085092	2	36.0	2	97	2	135	50	0	0	49	1.00
13085333--13085398	27	2.3	29	76	10	82	37	1	3	57	1.23
13088294--13088357	7	9.0	7	81	11	51	65	3	29	1	1.17
13088331--13088371	7	6.1	7	94	5	68	56	0	43	0	0.99
13088332--13088380	6	7.7	6	95	2	62	57	0	42	0	0.99
13088516--13088550	18	1.9	18	100	0	70	28	0	11	60	1.32
13089164--13089216	24	2.5	21	77	22	58	58	0	5	35	1.22
13089467--13089516	16	3.2	16	71	21	52	58	8	2	32	1.39
13089548--13089642	30	3.2	30	66	16	72	36	4	11	47	1.59

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