genome.fa.s9.2.7.7.80.10.50.1000.43.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  43  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)
15803685--15803716	13	2.3	15	89	10	50	68	6	9	15	1.36
15804120--15804145	9	2.9	9	100	0	52	42	0	0	57	0.98
15805162--15805225	17	3.5	17	72	15	56	39	3	6	51	1.43
15806578--15807229	100	6.5	100	90	0	982	37	21	25	15	1.93
15807204--15807423	48	4.5	48	74	2	161	39	22	24	13	1.90
15807716--15808603	206	4.3	206	91	0	1312	35	18	22	23	1.95
15808970--15809004	18	1.9	18	94	0	61	48	0	8	42	1.33
15809808--15809852	19	2.4	19	81	7	56	48	0	2	48	1.13
15810664--15810699	18	2.0	18	88	0	54	52	5	0	41	1.24
15810628--15810887	106	2.5	104	82	7	298	51	11	7	30	1.65
15810639--15810915	100	2.7	102	80	9	246	54	10	5	29	1.56
15810901--15811177	95	2.8	99	85	6	336	48	8	12	30	1.70
15813588--15813626	18	2.2	18	90	0	60	61	5	0	33	1.18
15813710--15813734	11	2.3	11	100	0	50	76	8	0	16	1.02
15814890--15814953	26	2.5	26	87	5	85	23	32	28	15	1.95
15815034--15815068	18	1.9	18	88	0	52	25	5	8	60	1.49
15816549--15816584	18	2.0	18	88	0	54	52	5	0	41	1.24
15816525--15816844	100	3.2	98	87	7	445	50	10	6	32	1.63
15816585--15816902	103	3.1	101	73	14	276	53	8	5	32	1.55
15817817--15817857	21	2.0	21	85	9	57	29	0	21	48	1.50
15817937--15817983	22	2.3	22	89	10	73	34	2	0	63	1.06
15817936--15817990	22	2.4	23	82	17	71	32	1	0	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15818238--15818380	59	2.4	59	91	2	225	49	9	6	34	1.61
15818785--15818818	18	1.9	17	100	0	59	47	0	23	29	1.52
15820355--15820453	21	4.8	19	71	18	58	69	1	1	28	1.01
15820370--15820454	27	3.2	27	78	9	95	68	1	1	29	1.05
15821084--15821137	18	2.9	18	84	13	65	37	0	3	59	1.15
15821084--15821126	19	2.2	20	88	12	63	41	0	2	55	1.12
15821144--15821194	16	3.4	16	73	15	54	39	1	1	56	1.22
15821139--15821195	29	1.9	30	92	3	98	38	1	3	56	1.27
15821193--15821261	20	3.4	20	80	11	70	63	4	1	30	1.22
15821240--15821266	13	2.1	13	100	0	54	62	0	0	37	0.95
15821190--15821260	18	3.7	18	80	16	72	61	4	1	32	1.23
15821330--15821359	13	2.2	14	94	5	53	66	0	0	33	0.92
15822989--15823021	15	2.2	15	94	0	57	24	0	18	57	1.40
15825636--15825697	31	2.0	31	96	0	115	27	16	8	48	1.74
15826237--15826285	25	1.9	26	84	12	66	51	6	2	40	1.38
15841534--15841562	6	4.8	6	100	0	58	13	34	0	51	1.42
15841973--15842021	14	3.1	16	80	17	57	46	2	0	51	1.12
15842401--15842450	19	2.5	20	84	9	59	42	2	2	54	1.23
15845238--15845281	23	1.9	23	85	0	61	31	4	2	61	1.28
15848128--15848327	59	3.4	59	81	6	253	36	2	29	31	1.71
15848175--15848356	30	6.2	29	73	14	113	34	1	30	33	1.68
15848222--15848304	29	2.8	28	84	12	96	36	3	31	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15848082--15848356	59	4.7	58	73	10	193	37	2	27	32	1.69
15848280--15848356	29	2.6	29	80	17	104	33	0	28	37	1.58
15848299--15848399	50	2.0	50	83	7	125	38	0	25	34	1.63
15848305--15848411	50	2.1	49	80	8	117	38	0	24	36	1.62
15849578--15849630	22	2.6	21	83	16	67	41	1	0	56	1.10
15850319--15850366	17	2.8	16	81	12	60	56	6	0	37	1.25
15850289--15850372	6	14.3	6	70	14	59	51	3	2	42	1.32
15850333--15850384	24	2.2	24	86	3	79	59	5	0	34	1.21
15850668--15851316	51	12.8	52	63	15	196	32	17	14	34	1.91
15850668--15851335	102	6.6	102	93	1	1083	32	17	14	35	1.90
15851527--15851633	49	2.2	50	88	8	166	11	28	19	41	1.86
15859616--15859654	18	2.0	20	85	14	55	41	12	25	20	1.88
15863470--15863509	19	2.1	19	85	0	53	37	2	27	32	1.70
15863482--15863705	29	7.6	28	69	18	98	40	1	26	31	1.66
15863369--15863798	118	3.7	117	79	9	430	40	2	23	32	1.69
15863369--15863814	58	7.6	58	77	11	342	40	3	23	32	1.71
15863517--15863812	29	10.1	28	71	16	167	39	2	25	32	1.70
15863369--15863814	117	3.8	118	79	9	457	40	3	23	32	1.71
15864927--15865015	6	15.3	6	68	11	60	51	3	3	41	1.35
15864919--15864992	18	4.2	18	75	17	75	52	4	2	40	1.34
15864944--15865027	41	2.0	42	83	2	107	53	4	3	38	1.39
15868128--15868188	31	2.0	31	81	12	72	47	11	3	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15873691--15873730	2	20.5	2	94	5	73	50	0	0	50	1.00
15874907--15874991	42	2.0	42	93	4	145	32	12	14	40	1.84
15876438--15876469	14	2.3	14	100	0	64	25	34	18	21	1.96
15886854--15886923	33	2.1	33	84	10	90	38	10	2	48	1.51
15888858--15888901	3	15.0	3	81	13	56	31	0	2	65	1.05
15888858--15888903	15	2.8	18	87	12	64	32	0	2	65	1.05
15888905--15888991	19	4.6	18	72	17	68	65	5	0	28	1.15
15889013--15889056	18	2.4	19	84	3	54	65	6	6	20	1.39
15889046--15889091	23	2.0	23	91	0	74	71	15	0	13	1.14
15889047--15889100	12	4.6	12	79	4	65	72	11	0	16	1.12
15900737--15900770	17	2.0	18	88	11	54	47	0	0	52	1.00
15903097--15903258	41	4.1	40	74	9	127	39	17	23	19	1.92
15910298--15910404	54	2.0	51	94	5	187	22	16	22	38	1.93
15910715--15910758	21	2.2	20	91	4	70	63	0	18	18	1.31
15914668--15914698	5	6.2	5	92	0	53	0	19	3	77	0.90
15927708--15927759	17	2.8	18	85	8	70	9	7	11	71	1.32
15927696--15927771	20	3.8	20	76	13	77	6	6	17	69	1.31
15927754--15927835	12	7.1	12	81	8	64	4	4	21	68	1.28
15927768--15927833	35	1.9	34	84	3	87	6	6	21	66	1.35
15927964--15928020	19	2.7	22	79	20	68	29	0	3	66	1.08
15927985--15928028	20	2.3	19	84	11	54	25	0	6	68	1.14
15927993--15928036	21	2.1	21	83	8	54	27	0	9	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15936655--15936682	12	2.3	12	100	0	56	67	0	0	32	0.91
15941943--15941999	23	2.5	24	82	8	73	38	19	10	31	1.86
15945848--15945908	31	2.0	31	90	0	95	37	11	8	42	1.71
15947606--15947731	30	4.2	30	80	5	139	41	0	19	38	1.58
15947728--15947791	30	2.2	30	83	8	78	39	3	17	40	1.65
15948433--15948524	10	9.4	10	72	9	55	43	2	6	47	1.41
15948491--15948524	2	17.0	2	100	0	68	50	0	0	50	1.00
15949696--15950173	99	4.8	97	75	7	337	19	31	15	33	1.93
15949702--15950162	148	3.1	147	81	5	513	19	31	15	33	1.93
15949710--15950162	49	9.2	49	77	7	305	18	31	15	33	1.93
15949666--15950173	49	10.3	48	76	5	254	18	31	16	33	1.93
15951401--15951485	26	3.4	26	82	12	124	37	23	27	11	1.90
15951416--15951494	22	3.4	22	81	13	104	41	24	24	10	1.85
15951401--15951492	48	1.9	48	97	0	175	40	22	26	10	1.87
15960923--15960998	11	6.1	12	72	22	50	40	1	3	53	1.27
15960936--15960985	23	2.2	23	82	7	57	42	0	6	52	1.26
15960925--15961005	34	2.3	35	85	2	110	40	1	3	54	1.26
15960925--15961016	17	5.4	17	75	11	80	43	1	3	52	1.24
15962923--15963241	29	10.9	28	69	12	151	32	24	2	39	1.69
15962923--15963377	58	7.8	57	75	12	300	32	25	2	40	1.69
15962923--15963377	59	7.8	58	73	12	281	32	25	2	40	1.69
15963376--15963455	29	2.8	29	79	7	74	32	23	5	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15963414--15963473	28	2.1	28	90	0	93	33	28	10	28	1.89
15964615--15964968	30	11.9	29	70	11	180	37	2	22	37	1.68
15964615--15964924	59	5.2	59	76	9	242	37	2	22	37	1.67
15964740--15964955	89	2.4	89	78	2	200	39	2	20	37	1.65
15964829--15964942	59	1.9	59	85	1	156	37	0	19	42	1.57
15967846--15967875	12	2.5	12	88	0	51	56	0	43	0	0.99
15974939--15974992	21	2.6	21	74	8	56	38	22	1	37	1.65
15987481--15987536	28	2.0	28	82	6	69	67	3	0	28	1.07
15991193--15991333	53	2.7	53	90	0	219	30	13	21	34	1.92
15991309--15991359	26	2.0	26	92	0	84	19	17	27	35	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