genome.fa.s11.2.7.7.80.10.50.1000.135.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  135  of  143  ( 17057 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)
40083278--40083318	18	2.3	18	87	4	57	39	4	9	46	1.58
40084283--40084342	30	2.0	30	100	0	120	33	10	6	50	1.62
40097853--40097877	7	3.6	7	100	0	50	12	0	16	72	1.13
40104436--40104473	5	7.4	5	96	3	67	2	18	0	78	0.86
40110857--40110909	19	2.7	19	79	2	61	58	7	0	33	1.26
40110850--40110921	20	3.7	20	75	12	69	56	5	0	37	1.22
40111203--40111247	23	2.0	23	86	0	63	60	2	0	37	1.09
40111358--40111389	15	2.1	15	100	0	64	34	12	0	53	1.39
40111730--40111791	31	2.0	31	90	3	99	43	17	1	37	1.59
40117873--40117920	21	2.3	21	96	0	87	22	6	14	56	1.61
40119278--40119525	58	4.2	58	87	4	356	34	4	29	31	1.77
40119318--40119531	29	7.3	30	69	20	134	34	3	29	32	1.75
40119278--40119498	29	7.5	29	69	20	111	34	4	29	31	1.76
40121351--40121392	23	1.9	22	90	9	68	57	7	0	35	1.26
40122822--40123145	89	3.6	88	80	5	321	34	26	1	37	1.67
40122822--40123145	30	10.9	30	78	6	311	34	26	1	37	1.67
40124002--40124052	25	2.1	24	85	10	68	35	1	5	56	1.35
40124256--40124298	2	21.5	2	100	0	86	51	0	0	48	1.00
40133581--40133651	35	2.0	37	83	5	92	53	0	1	45	1.09
40133610--40133673	26	2.5	27	82	7	80	50	1	1	46	1.20
40133596--40133662	31	2.2	31	81	5	84	50	1	1	46	1.19
40133639--40133678	20	2.0	20	90	4	64	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40138926--40138956	15	2.1	15	93	0	53	35	12	12	38	1.82
40140825--40140898	32	2.3	32	84	6	89	41	16	12	29	1.84
40140894--40140938	19	2.3	20	85	11	58	44	2	4	48	1.35
40140894--40140931	20	1.9	20	89	10	60	36	2	5	55	1.37
40146439--40146486	21	2.4	20	80	16	55	45	2	0	52	1.12
40149675--40149728	27	2.1	26	83	13	67	53	0	1	44	1.11
40151961--40151991	2	16.0	2	93	6	55	48	0	0	51	1.00
40154963--40155003	16	2.5	16	88	11	57	2	21	0	75	0.92
40154963--40155003	11	3.8	10	87	12	55	2	21	0	75	0.92
40154963--40155003	5	7.6	5	84	15	55	2	21	0	75	0.92
40155511--40155598	22	4.0	22	83	2	106	18	29	25	27	1.98
40155513--40155586	33	2.2	33	85	0	103	18	29	24	27	1.98
40155513--40155598	11	7.8	11	81	3	93	17	30	25	26	1.97
40155595--40155644	21	2.5	20	86	3	73	22	20	22	36	1.96
40157975--40158067	41	2.3	41	90	0	141	36	25	6	31	1.81
40158057--40158095	17	2.3	17	90	0	60	46	25	12	15	1.81
40172113--40172185	37	2.0	37	86	0	101	50	1	8	39	1.41
40172358--40172488	14	9.2	14	65	24	53	48	1	1	48	1.20
40174366--40174406	20	2.1	20	86	4	57	60	2	0	36	1.10
40176558--40176598	20	2.1	20	86	4	57	60	2	0	36	1.10
40177954--40177992	19	2.0	21	85	10	55	41	5	5	48	1.47
40180642--40180684	13	3.2	13	83	3	50	76	6	13	2	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40180656--40180684	13	2.1	14	93	6	51	82	3	13	0	0.79
40190642--40190700	29	2.1	29	93	3	102	33	6	1	57	1.35
40190649--40190710	29	2.2	28	82	2	79	40	4	3	51	1.39
40191042--40191071	16	1.9	15	93	6	51	40	0	0	60	0.97
40191010--40191170	84	1.9	84	83	5	209	47	2	3	47	1.31
40203149--40203192	23	1.9	23	95	0	79	45	2	9	43	1.48
40203638--40203667	3	10.0	3	92	0	51	0	30	36	33	1.58
40204553--40204589	3	12.3	3	100	0	74	67	0	0	32	0.91
40211138--40211171	17	1.9	18	88	5	52	41	0	2	55	1.15
40211535--40211569	14	2.4	15	95	4	63	42	8	0	48	1.33
40225736--40225776	21	2.0	21	85	0	55	39	12	4	43	1.63
40231845--40231874	15	2.0	15	100	0	60	20	6	40	33	1.78
40232907--40232968	31	2.0	31	87	6	90	27	17	8	46	1.76
40232914--40232987	31	2.4	31	83	2	94	28	17	8	45	1.77
40232870--40233042	91	1.9	92	84	3	233	24	16	11	47	1.80
40233207--40233353	56	2.5	59	82	9	160	53	12	12	21	1.71
40233268--40233374	55	1.9	57	84	7	148	58	9	7	24	1.55
40237187--40237240	24	2.2	25	83	9	67	51	5	0	42	1.25
40237655--40237683	3	9.7	3	100	0	58	65	0	0	34	0.93
40239384--40239419	19	1.9	18	88	5	54	50	0	8	41	1.33
40240422--40240541	58	2.1	58	90	3	188	31	0	18	50	1.47
40240446--40240556	58	1.9	58	87	7	163	31	0	18	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40240717--40240789	38	2.0	36	84	7	94	32	12	10	43	1.77
40249854--40249888	2	17.5	2	100	0	70	51	48	0	0	1.00
40249886--40249917	4	8.0	4	100	0	64	50	25	0	25	1.50
40258378--40258408	13	2.4	13	94	0	53	61	0	22	16	1.34
40259064--40259222	56	2.9	54	79	7	153	52	8	18	20	1.71
40259194--40259255	26	2.3	27	91	2	99	67	1	17	12	1.30
40286024--40286084	31	2.0	31	83	6	79	42	8	9	39	1.68
40287837--40287972	23	6.0	21	76	15	112	11	23	20	44	1.84
40287838--40287985	69	2.1	69	84	9	187	12	22	18	45	1.83
40296982--40297024	21	2.2	19	83	8	50	74	2	2	20	1.04
40298125--40298151	4	6.8	4	100	0	54	25	0	22	51	1.48
40302318--40302390	18	4.0	18	65	21	53	45	0	2	52	1.15
40302314--40302396	15	5.1	15	69	25	53	43	0	2	54	1.13
40302325--40302411	37	2.4	36	80	14	92	43	1	4	50	1.30
40310540--40310582	20	2.2	18	88	12	59	60	2	0	37	1.10
40310634--40310692	20	3.0	20	78	12	59	64	1	8	25	1.31
40310904--40310983	19	4.4	19	74	15	69	32	0	3	63	1.12
40310869--40310997	9	14.4	9	69	18	56	31	1	3	64	1.18
40311959--40312026	29	2.3	29	82	10	84	48	1	7	42	1.40
40313513--40313549	12	3.2	12	85	11	51	51	0	0	48	1.00
40315110--40315161	23	2.3	22	87	6	77	26	15	7	50	1.71
40315121--40315169	23	2.1	23	96	0	89	26	14	6	53	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40316282--40316356	11	6.7	11	71	18	57	45	2	0	52	1.15
40318236--40318377	30	4.7	30	87	1	187	40	25	2	31	1.67
40318294--40318348	15	3.3	19	63	36	54	40	27	3	29	1.73
40318234--40318403	60	2.8	60	83	4	175	38	28	1	31	1.67
40318353--40318548	59	3.4	58	73	3	180	29	29	4	37	1.77
40320249--40320290	21	2.0	21	86	9	59	76	4	0	19	0.96
40321291--40321331	13	2.9	14	83	16	50	31	0	0	68	0.90
40321326--40321395	34	2.1	33	84	7	88	38	1	1	58	1.16
40321335--40321411	34	2.4	33	80	8	86	38	1	1	58	1.15
40328722--40328747	4	6.5	4	100	0	52	0	0	23	76	0.78
40335104--40335150	22	2.3	19	82	13	58	65	2	2	29	1.15
40335329--40335355	14	1.9	14	100	0	54	33	14	7	44	1.73
40335344--40335397	26	2.1	26	82	6	65	27	20	9	42	1.82
40339900--40339965	33	2.0	33	100	0	132	24	18	18	39	1.92
40344096--40344213	54	2.2	54	84	0	155	38	9	15	36	1.79
40347562--40347617	19	3.0	19	75	12	62	41	0	5	53	1.24
40352465--40352505	18	2.4	16	84	15	55	58	2	4	34	1.32
40360116--40360157	20	2.1	20	82	8	50	69	7	0	23	1.13
40362551--40362594	18	2.6	17	82	10	54	38	0	2	59	1.10
40364138--40365235	443	2.5	442	88	1	1560	24	22	22	29	1.99
40366722--40366762	22	1.9	21	90	5	64	31	2	4	60	1.30
40366901--40366957	28	2.0	28	82	3	69	38	5	0	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40369660--40369850	63	3.0	63	84	3	242	14	46	23	15	1.82
40369724--40369770	24	2.0	24	91	0	76	12	48	27	10	1.74
40379304--40379345	17	2.3	18	88	8	59	50	0	4	45	1.23
40382423--40382511	39	2.3	39	100	0	178	28	49	4	17	1.66
40384497--40384542	24	1.9	24	82	8	58	65	23	6	4	1.35
40385639--40385675	12	3.1	12	96	0	65	29	16	24	29	1.96
40389256--40389338	31	2.8	28	80	18	89	46	7	1	44	1.38
40396319--40396368	24	2.1	24	88	7	75	32	6	0	62	1.20
40398254--40398332	24	3.3	24	73	3	70	65	17	6	10	1.43
40398293--40398354	12	5.3	12	71	7	56	67	16	6	9	1.39

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